Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 51 of 100
Found at i:9392245 original size:29 final size:30
Alignment explanation
Indices: 9392213--9392276 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
9392203 AGATTAGAAT
*
9392213 TATTTAGTATTTCTTA-TTTTA-TTTTATTC
1 TATTTAGTATCT-TTATTTTTATTTTTATTC
* *
9392242 TATTT-TTATCTTTATTTTTATTTTTATTT
1 TATTTAGTATCTTTATTTTTATTTTTATTC
9392271 TATTTA
1 TATTTA
9392277 TTTTATTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 3 0.10
28 9 0.31
29 17 0.59
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (30 bp):
TATTTAGTATCTTTATTTTTATTTTTATTC
Found at i:9392261 original size:6 final size:6
Alignment explanation
Indices: 9392220--9392275 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
9392210 AATTATTTAG
* *
9392220 TATTTCT TA-TTT TA-TTT TA-TTC TATTTT TATCTT TATTTT TATTTT
1 TATTT-T TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
9392266 TA-TTT TATTT
1 TATTTT TATTT
9392276 ATTTTATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
5 17 0.40
6 24 0.56
7 2 0.05
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:9392278 original size:4 final size:5
Alignment explanation
Indices: 9392226--9392285 Score: 68
Period size: 5 Copynumber: 11.4 Consensus size: 5
9392216 TTAGTATTTC
*
9392226 TTATT TTATT TTATT CTATTT TTATCT TTATTT TTATTT TTATT TTA-T
1 TTATT TTATT TTATT TTA-TT TTAT-T TTA-TT TTA-TT TTATT TTATT
9392274 TTATT TTATT TT
1 TTATT TTATT TT
9392286 CTTTAAATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
4 4 0.08
5 26 0.53
6 18 0.37
7 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:9392290 original size:9 final size:9
Alignment explanation
Indices: 9392226--9392284 Score: 50
Period size: 9 Copynumber: 6.2 Consensus size: 9
9392216 TTAGTATTTC
9392226 TTATTTTATT
1 TTATTTTA-T
*
9392236 TTATTCTATTT
1 TTATT-T-TAT
9392247 TTATCTTTAT
1 TTAT-TTTAT
9392257 TT-TTATT-T
1 TTATT-TTAT
9392265 TTATTTTAT
1 TTATTTTAT
9392274 TTATTTTAT
1 TTATTTTAT
9392283 TT
1 TT
9392285 TCTTTAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
8 6 0.15
9 17 0.41
10 9 0.22
11 7 0.17
12 2 0.05
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTTAT
Found at i:9392369 original size:58 final size:58
Alignment explanation
Indices: 9392304--9392458 Score: 274
Period size: 58 Copynumber: 2.7 Consensus size: 58
9392294 AAAATTCCAA
*
9392304 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCT
* *
9392362 AAAAAATATTTGTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCT
*
9392420 AGAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
9392459 CATTGTACGA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 91 1.00
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCT
Found at i:9393242 original size:25 final size:27
Alignment explanation
Indices: 9393198--9393247 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
9393188 TTCAAAAATA
*
9393198 ATTTATATATATTTTTATTTTTTTAAC
1 ATTTATATATATTTTAATTTTTTTAAC
9393225 ATTTATATA-A-TTTAATTTTTTTA
1 ATTTATATATATTTTAATTTTTTTA
9393248 TTTTTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.55
26 1 0.05
27 9 0.41
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (27 bp):
ATTTATATATATTTTAATTTTTTTAAC
Found at i:9393799 original size:25 final size:26
Alignment explanation
Indices: 9393770--9393834 Score: 82
Period size: 25 Copynumber: 2.5 Consensus size: 26
9393760 TAACATGACA
9393770 ATTAAAATATTAAAAAAT-ATTTATT
1 ATTAAAATATTAAAAAATGATTTATT
9393795 ATTAAAAAATATT--AAAATGATTTATT
1 ATT--AAAATATTAAAAAATGATTTATT
9393821 ATTAAAATTATTAA
1 ATTAAAA-TATTAA
9393835 TATTAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
24 4 0.12
25 12 0.35
26 10 0.29
27 8 0.24
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTAAAATATTAAAAAATGATTTATT
Found at i:9393811 original size:26 final size:27
Alignment explanation
Indices: 9393773--9393827 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
9393763 CATGACAATT
9393773 AAAATATTAAAAAAT-ATTTATTATTAA
1 AAAATATT-AAAAATGATTTATTATTAA
9393800 AAAATATT-AAAATGATTTATTATTAA
1 AAAATATTAAAAATGATTTATTATTAA
9393826 AA
1 AA
9393828 TTATTAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 5 0.19
26 14 0.52
27 8 0.30
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
AAAATATTAAAAATGATTTATTATTAA
Found at i:9393840 original size:15 final size:16
Alignment explanation
Indices: 9393802--9393842 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
9393792 ATTATTAAAA
9393802 AATATTAAAATGATTT
1 AATATTAAAATGATTT
* *
9393818 ATTATTAAAATTA-TT
1 AATATTAAAATGATTT
9393833 AATATTAAAA
1 AATATTAAAA
9393843 ATAATTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
AATATTAAAATGATTT
Found at i:9393843 original size:16 final size:15
Alignment explanation
Indices: 9393802--9393867 Score: 55
Period size: 16 Copynumber: 4.4 Consensus size: 15
9393792 ATTATTAAAA
*
9393802 AATATTAAAATGATTT
1 AATATTAAAAT-AATT
* *
9393818 ATTATTAAAATTATT
1 AATATTAAAATAATT
9393833 AATATTAAAAATAATT
1 AATATT-AAAATAATT
**
9393849 -ATATTGTAATAA-T
1 AATATTAAAATAATT
9393862 AATATT
1 AATATT
9393868 TGATATTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
13 1 0.02
14 10 0.24
15 12 0.29
16 18 0.44
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
AATATTAAAATAATT
Found at i:9396289 original size:7 final size:6
Alignment explanation
Indices: 9396254--9396287 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
9396244 TTATTTTTAG
*
9396254 TTTAAT TTTAAT TTTAAT TTTAGTT TTTAAT TTT
1 TTTAAT TTTAAT TTTAAT TTTA-AT TTTAAT TTT
9396288 TATTATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTAAT
Found at i:9399063 original size:19 final size:19
Alignment explanation
Indices: 9399026--9399070 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
9399016 TTTATTATGA
* *
9399026 AATAAAAAATAACACAAAT
1 AATAAAAAATAAAAAAAAT
*
9399045 AATAAAAATTAAAAAAAAT
1 AATAAAAAATAAAAAAAAT
*
9399064 GATAAAA
1 AATAAAA
9399071 CCAACAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (19 bp):
AATAAAAAATAAAAAAAAT
Found at i:9399697 original size:22 final size:21
Alignment explanation
Indices: 9399664--9399712 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
9399654 AAAATGTAAA
9399664 ATAAAAA-ATTTTAATAAAATT
1 ATAAAAATATTTTAA-AAAATT
*
9399685 ATAAAAAGTTTTTTAAAAAATT
1 ATAAAAA-TATTTTAAAAAATT
9399707 ATAAAA
1 ATAAAA
9399713 TTGTTTAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 7 0.28
22 12 0.48
23 6 0.24
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAAAAATATTTTAAAAAATT
Found at i:9399719 original size:20 final size:23
Alignment explanation
Indices: 9399673--9399720 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
9399663 AATAAAAAAT
*
9399673 TTTAATAAAATTATAAAAAGTTT
1 TTTAATAAAATTATAAAAAGTTG
9399696 TTTAA-AAAATTAT-AAAA-TTG
1 TTTAATAAAATTATAAAAAGTTG
9399716 TTTAA
1 TTTAA
9399721 CCAATCCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 4 0.17
22 8 0.33
23 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
TTTAATAAAATTATAAAAAGTTG
Found at i:9403740 original size:20 final size:20
Alignment explanation
Indices: 9403701--9403773 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
9403691 ATTTTAAATA
9403701 AAATTAAATAAAAAT-TTTT
1 AAATTAAATAAAAATATTTT
* *
9403720 TAATTAATATAATAATATTTT
1 AAATTAA-ATAAAAATATTTT
* * *
9403741 AAATTAAATCAAATTAAATTT
1 AAATTAAATAAAAAT-ATTTT
9403762 AAATTAAA-AAAA
1 AAATTAAATAAAA
9403774 TCATATCCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 6 0.14
20 15 0.35
21 22 0.51
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATTAAATAAAAATATTTT
Found at i:9404653 original size:22 final size:22
Alignment explanation
Indices: 9404627--9404673 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
9404617 AATTATTCAT
9404627 CTTCGCAAAATAATTGCTTGGA
1 CTTCGCAAAATAATTGCTTGGA
9404649 CTTCGCAAAATAATTGCTTGGA
1 CTTCGCAAAATAATTGCTTGGA
9404671 CTT
1 CTT
9404674 ACTGCTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (22 bp):
CTTCGCAAAATAATTGCTTGGA
Found at i:9405376 original size:1 final size:1
Alignment explanation
Indices: 9405370--9405394 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
9405360 ACTTTAACTT
9405370 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
9405395 CGTTTCTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9415615 original size:14 final size:14
Alignment explanation
Indices: 9415596--9415642 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
9415586 GAGGACTGTG
9415596 TTTTTTTTGTGTTT
1 TTTTTTTTGTGTTT
9415610 TTTTTTTTGCATTGTTT
1 TTTTTTTTG---TGTTT
*
9415627 TTTTTTTTTTGTTT
1 TTTTTTTTGTGTTT
9415641 TT
1 TT
9415643 GCAACGTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 16 0.55
17 13 0.45
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (14 bp):
TTTTTTTTGTGTTT
Found at i:9415946 original size:19 final size:19
Alignment explanation
Indices: 9415922--9415969 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
9415912 TCCCCCTTTT
* *
9415922 TTTTGTTCTTTTTTTTATA
1 TTTTGTTATTTTTTTGATA
*
9415941 TTTTG-TATTTTTTTGGTA
1 TTTTGTTATTTTTTTGATA
9415959 TTTTG-TATTTT
1 TTTTGTTATTTT
9415970 GGTATTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.77
Consensus pattern (19 bp):
TTTTGTTATTTTTTTGATA
Found at i:9415953 original size:18 final size:18
Alignment explanation
Indices: 9415930--9415969 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9415920 TTTTTTGTTC
*
9415930 TTTTTTTTATATTTTGTA
1 TTTTTTTGATATTTTGTA
*
9415948 TTTTTTTGGTATTTTGTA
1 TTTTTTTGATATTTTGTA
9415966 TTTT
1 TTTT
9415970 GGTATTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (18 bp):
TTTTTTTGATATTTTGTA
Found at i:9416150 original size:28 final size:28
Alignment explanation
Indices: 9416072--9416134 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
9416062 GGGTTAAGTA
* *
9416072 GAATTGAAATCAGA-CCTGAAGCCTAATT
1 GAATTAAAAT-AGAGCCTGAATCCTAATT
9416100 GAATTAAAATAGAGCCTGAATCCTAATT
1 GAATTAAAATAGAGCCTGAATCCTAATT
9416128 GAATTAA
1 GAATTAA
9416135 TATCGGGTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 3 0.09
28 29 0.91
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (28 bp):
GAATTAAAATAGAGCCTGAATCCTAATT
Found at i:9416252 original size:25 final size:26
Alignment explanation
Indices: 9416224--9416282 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
9416214 TACAATAACT
*
9416224 ATTAAAATAT-TAAAAATTATTTATA
1 ATTAAAATATATAAAAATAATTTATA
** *
9416249 ATTAAAATATATTGAAATAATTTATT
1 ATTAAAATATATAAAAATAATTTATA
9416275 ATTAAAAT
1 ATTAAAAT
9416283 TAGTAATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTAAAATATATAAAAATAATTTATA
Found at i:9417386 original size:29 final size:31
Alignment explanation
Indices: 9417354--9417412 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
9417344 AGGTGACAAC
9417354 ATATAAT-ACAATA-AT-AGAATATAAAATTT
1 ATATAATAACAATATATCA-AATATAAAATTT
*
9417383 ATATAATAATAATATATCAAATATAAAATT
1 ATATAATAACAATATATCAAATATAAAATT
9417413 GTTTTTACGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 7 0.27
30 5 0.19
31 13 0.50
32 1 0.04
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (31 bp):
ATATAATAACAATATATCAAATATAAAATTT
Found at i:9419724 original size:697 final size:693
Alignment explanation
Indices: 9418381--9419778 Score: 1629
Period size: 697 Copynumber: 2.0 Consensus size: 693
9418371 CCGACAGATG
* *
9418381 TAAG-TTTTTTTGTGCATTTGAGATCTATTTTAGAAAAGATTGATAACTGTTCTTGATAGGAATT
1 TAAGATTTTTTTGTGCATTTGAGATCCATTTTAGAAAAAATTGATAACTGTTCTTGATAGGAATT
* * * *
9418445 TAGACTAATAATTAAATTAAAAAATTACAGTTAGGTGTATCAGACGATTGCAATATAATAAATGA
66 TAGACTAATAATTAAATTAAAAAATTACAGTTAGGGGTATCAGAAGATTCCAACATAATAAATGA
* * * * * * * * *
9418510 TTAGTGTTTTCTTTTTAAAACAATATTATATGACGTAATGAATGTAATTCATATATTTCGAGTGT
131 TCACTG-TATCTTTTTAAAAAAATATTATATGAAGCAATGAATGCAATTCATATATTTCAAATGT
* * * ** *
9418575 AATGAGGTATTTTATTGTCAAGATAAAATTGACCTTTTCTTTTCTTCTCTCTTCCAACTTTCTTC
195 AATGAGGCATTCTACTGTCAAGATAAAATTGACCTTTTCTTTTCTTCTCTCTTCCAACCCTCCTC
* * * * * *
9418640 CTCTTCGATCAACGGCCAACTGGTACGGACAAGGAAGGATTTGGAAAAGAAAAAATGAATAAAAG
260 CTCATCGATCAACGGCCAACTGGCACAGACAAGGAAGGATTTGAAAAAAAAAAAAAGAATAAAAG
* * * *
9418705 GGAAAAGTATAAAAAAAAAAATTAAGGGTAATTTTGGTACTTCGTTGGTTTTTTTTTATTACAGT
325 GGAAAAG-ATAAAAAAAAAAATTAAGGGTAATTTTGGTACTTCGGTGGGTTCTTTTTAGTACAG-
* * * * * *
9418770 AGTTGATAGTGATTAACATTTTTATGATTACATTAAAAAAATCATTTCATCAAACATTACTTATT
388 AGTTGATAGTAATTAACATTTTCAGGATTACATTAAAAAAACCATTACATCAAACATTAATTATT
* * * * *
9418835 TTTCAATAAACTACACAGCCCGTTAATTTATTTCTATTTCAATACCTAAGTGCAATTTTCTCTAA
453 TTTCAAAAAACCACACAGACCATTAATTTATTTCTATTTCAATACATAAGTGCAATTTTCTCTAA
* *
9418900 TAAAAAGTAGTGCCTTGGTTCTGCTAACATTATTTGAAACTCGTGATTCGAAAAACTAAAATAAA
518 TAAAAAGTAGTGCCTTGGTTATGCTAACATTATTTGAAAATCGTGATTCGAAAAACTAAAATAAA
* * * * ** * *
9418965 AATCAAATTGTTGTTTAAATCGAAAATTTTGAATTTGTTTCAATGCCATATTCTAGTAGTCAACT
583 AATCAAATTGATGTTTAAATAGAAAAGTTCGAATTCATTTCAATACCATATTCTAATAGTCAACT
* *
9419030 ATACAATGACAAATTTATCTTTAATAACTTTCACTACAGGTAAGAA
648 ATACAATGACAAATTCATCTTTAATAACTTTCACTACACGTAAGAA
* * *
9419076 TAAGATTTTTTTGTGCATTTTAGTTCCGTTTTAGAAAAAATTGATAACTGTTCTTGATAGGAATT
1 TAAGATTTTTTTGTGCATTTGAGATCCATTTTAGAAAAAATTGATAACTGTTCTTGATAGGAATT
* ** * *
9419141 TAGATTAATAATTAAATTTAAAAAATTACAGTTAGGGGTATTTGAATATTCCAACATAATAAATT
66 TAGACTAATAATTAAA-TTAAAAAATTACAGTTAGGGGTATCAGAAGATTCCAACATAATAAATG
* ** *
9419206 ATCACTG-AT-TTTTTAAAATAAATATTATTTGAAGCAATGAATATGCAATTTTTATATTTTAAA
130 ATCACTGTATCTTTTTAAAA-AAATATTATATGAAGCAATG-A-ATGCAATTCATATATTTCAAA
* * * *
9419269 TGTAATGAGGCATTCTGCTGTCAAGATCACAA-TGTCTTTTTCTTTTCTTTTTCTTCTCTTTCC-
192 TGTAATGAGGCATTCTACTGTCAAGAT-AAAATTGACCTTTTCTTTTC---TTC-TCTC-TTCCA
* * * ** *
9419332 ACCCTCCTGCTCATCGGTCAAGGGCCAACTGGCACCAG-CAAGGGCGGGTTT-AAAAAAAAAAAA
251 ACCCTCCTCCTCATCGATCAACGGCCAACTGGCA-CAGACAAGGAAGGATTTGAAAAAAAAAAAA
* * * *
9419395 AG-ATAAAAAGGAGAGAAA-ATATAAACAAAAATTAAGGGTATTTTTGGTA-TTGGGTGGGTTCT
315 AGAAT-AAAAGG-GA-AAAGATAAAAAAAAAAATTAAGGGTAATTTTGGTACTTCGGTGGGTTCT
*
9419457 TTTT-GTAC-G-GTTGGTAGTAATTAACATTTTCAGGATTACATTAAGAAAAAACCATTACATCA
377 TTTTAGTACAGAGTTGATAGTAATTAACATTTTCAGGATTACATT-A-AAAAAACCATTACATCA
* * *
9419519 AACATTAATTATTTTTCAAAAAACCATACTGACCATTAATTTATTTCTATTTCATTACATAAGTG
440 AACATTAATTATTTTTCAAAAAACCACACAGACCATTAATTTATTTCTATTTCAATACATAAGTG
* * * * *
9419584 CAATTTTCTCTAATAAAAATTAGCT-CCTTGGTTATGCTAGCGTTATTTGAAAATTGTGATTTGG
505 CAATTTTCTCTAATAAAAAGTAG-TGCCTTGGTTATGCTAACATTATTTGAAAATCGTGA-TTCG
* * * * **
9419648 AAATA-TAAAATTAAAATCAAATTGATGTTTAAATAGAGAAGTTCGAATTCATTTCCATACTGTA
568 AAAAACTAAAATAAAAATCAAATTGATGTTTAAATAGAAAAGTTCGAATTCATTTCAATACCATA
* *
9419712 TTCTAATAGTCAACTATACAATGACAAATTCATCTTTAGTATCTTTCACTACACGTAAGAA
633 TTCTAATAGTCAACTATACAATGACAAATTCATCTTTAATAACTTTCACTACACGTAAGAA
9419773 TAAGAT
1 TAAGAT
9419779 ACTACAAAAT
Statistics
Matches: 587, Mismatches: 97, Indels: 36
0.82 0.13 0.05
Matches are distributed among these distances:
694 9 0.02
695 50 0.09
696 72 0.12
697 328 0.56
698 14 0.02
699 15 0.03
700 48 0.08
701 42 0.07
702 9 0.02
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (693 bp):
TAAGATTTTTTTGTGCATTTGAGATCCATTTTAGAAAAAATTGATAACTGTTCTTGATAGGAATT
TAGACTAATAATTAAATTAAAAAATTACAGTTAGGGGTATCAGAAGATTCCAACATAATAAATGA
TCACTGTATCTTTTTAAAAAAATATTATATGAAGCAATGAATGCAATTCATATATTTCAAATGTA
ATGAGGCATTCTACTGTCAAGATAAAATTGACCTTTTCTTTTCTTCTCTCTTCCAACCCTCCTCC
TCATCGATCAACGGCCAACTGGCACAGACAAGGAAGGATTTGAAAAAAAAAAAAAGAATAAAAGG
GAAAAGATAAAAAAAAAAATTAAGGGTAATTTTGGTACTTCGGTGGGTTCTTTTTAGTACAGAGT
TGATAGTAATTAACATTTTCAGGATTACATTAAAAAAACCATTACATCAAACATTAATTATTTTT
CAAAAAACCACACAGACCATTAATTTATTTCTATTTCAATACATAAGTGCAATTTTCTCTAATAA
AAAGTAGTGCCTTGGTTATGCTAACATTATTTGAAAATCGTGATTCGAAAAACTAAAATAAAAAT
CAAATTGATGTTTAAATAGAAAAGTTCGAATTCATTTCAATACCATATTCTAATAGTCAACTATA
CAATGACAAATTCATCTTTAATAACTTTCACTACACGTAAGAA
Found at i:9429562 original size:120 final size:119
Alignment explanation
Indices: 9429197--9429958 Score: 422
Period size: 119 Copynumber: 6.4 Consensus size: 119
9429187 TTATTCACTT
* * ** * *
9429197 ACCTGATCTTAGCTCAGTTTAGATCATTTCTTATGACTCGTAGTTTTA-TCTCGATCATTTATTT
1 ACCTAATCTTGGCTCAGTCCAGATCATTTCTTATGACTCGTGGTTTCATTCTCGATCATTTA--T
* * ** * *
9429261 TTGACCTTGAC-TTGATCCTAATCACTTCATTTTTGACACGTGGTTTCATCCCAATC
64 TTGACCTCGACTTTG-TTCTGGTCACTTCATTTTTGACACGTGGTTTCGTCCTAATC
* * * * * * *
9429317 ACTTGAT-TATGGCTTAGTCCAGATTATTTTTTATGACTTGTGGTTTC-TTCTCGAACATTT-TT
1 ACCTAATCT-TGGCTCAGTCCAGATCATTTCTTATGACTCGTGGTTTCATTCTCGATCATTTATT
* * * * ** **
9429379 T-ACCTCGA-TTCGATCTTGGTCACTTCATTTTTGACACGTGATTTTGTTTTTGTC
65 TGACCTCGACTTTGTTC-TGGTCACTTCATTTTTGACACGTGGTTTCGTCCTAATC
* * * *
9429433 ACCTTATCTTGGCTCAATCCATATCATTTCTTATGACTCGTGGTTTCATTCT-GGTCATTTAGTT
1 ACCTAATCTTGGCTCAGTCCAGATCATTTCTTATGACTCGTGGTTTCATTCTCGATCATTTA-TT
* * *
9429497 TCGACCTCGACTTTGTTCTGGTCATTTCATTTTTGACATGTGGTTTCGTCCTAATT
65 T-GACCTCGACTTTGTTCTGGTCACTTCATTTTTGACACGTGGTTTCGTCCTAATC
* * * *
9429553 ACCTAATCTTGGCTCAGTCCAGATCATTTTTTATGACTCGTGATTTTA-TCTC-AGTCATTATTT
1 ACCTAATCTTGGCTCAGTCCAGATCATTTCTTATGACTCGTGGTTTCATTCTCGA-TCATT-TAT
* * * * * * * * ** **
9429616 TTAACCTTGA-ATCGATCCTGGTCACTTAATTTTTGACATGTGATTTTATCCCGATC
64 TTGACCTCGACTTTG-TTCTGGTCACTTCATTTTTGACACGTGGTTTCGTCCTAATC
* * * * * * * * * * *
9429672 ACCTGATCTTGGTTTAGTCTAGATCATTTTTTTTAACTCGTGATTTTA-TCTCAATCATTATTTT
1 ACCTAATCTTGGCTCAGTCCAGATCATTTCTTATGACTCGTGGTTTCATTCTCGATCATT-TATT
* * * * ** * **
9429736 TTATCTCAAC-TTGGTCTTGGTCACTTCATTTTTGACATATGGTTTCATCCTGGTC
65 TGACCTCGACTTTGTTC-TGGTCACTTCATTTTTGACACGTGGTTTCGTCCTAATC
* * * * * * * *
9429791 A-CTGATCTTGTCTCAATCTAGATCATTTCTTATGACTTGTGGTTTTA-TCTTGGTCATTTATTT
1 ACCTAATCTTGGCTCAGTCCAGATCATTTCTTATGACTCGTGGTTTCATTCTCGATCATTTA--T
* * * * * * * * **
9429854 TTGACTTTGAC-TAGGTCTTGGTCGCTTTATTTTTGACAAGTGGTTTCATCCTGGTC
64 TTGACCTCGACTTTGTTC-TGGTCACTTCATTTTTGACACGTGGTTTCGTCCTAATC
* * * * * * *
9429910 ACTTGATCTTGGCTTAGTCTAGATCATTTCTTATAACTCATGATTTCAT
1 ACCTAATCTTGGCTCAGTCCAGATCATTTCTTATGACTCGTGGTTTCAT
9429959 CCCTGTTATT
Statistics
Matches: 502, Mismatches: 118, Indels: 43
0.76 0.18 0.06
Matches are distributed among these distances:
115 1 0.00
116 79 0.16
117 9 0.02
118 51 0.10
119 186 0.37
120 170 0.34
121 6 0.01
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (119 bp):
ACCTAATCTTGGCTCAGTCCAGATCATTTCTTATGACTCGTGGTTTCATTCTCGATCATTTATTT
GACCTCGACTTTGTTCTGGTCACTTCATTTTTGACACGTGGTTTCGTCCTAATC
Found at i:9429696 original size:119 final size:119
Alignment explanation
Indices: 9429197--9430067 Score: 631
Period size: 120 Copynumber: 7.3 Consensus size: 119
9429187 TTATTCACTT
* *
9429197 ACCTGATCTTAGCTCAGTTTAGATCATTTCTTATGACTCGT-AGTTTTATCTCGATCATTTATTT
1 ACCTGATCTTGGCTCAGTCTAGATCATTTCTTATGACTCGTGA-TTTTATCTCG-TCATTTATTT
* * ** * **
9429261 TTGACCTTGACTTGATCCTAATCACTTCATTTTTGACACGTGGTTTCATCCCAATC
64 TTGACCTTGAATCGATCCTGGTCACTTCATTTTTGACATGTGGTTTCATCCTGATC
* * * * * * * *
9429317 ACTTGAT-TATGGCTTAGTCCAGATTATTTTTTATGACTTGTGGTTTCT-TCTCGAACA--T-TT
1 ACCTGATCT-TGGCTCAGTCTAGATCATTTCTTATGACTCGTGATTT-TATCTCG-TCATTTATT
* * * * * ** **
9429377 TTT-ACCTCGATTCGATCTTGGTCACTTCATTTTTGACACGTGATTTTGTTTTTG-TC
63 TTTGACCTTGAATCGATCCTGGTCACTTCATTTTTGACATGTG-GTTTCATCCTGATC
* * * * * * * *
9429433 ACCTTATCTTGGCTCAATCCATATCATTTCTTATGACTCGTGGTTTCATTCTGGTCATTTAGTTT
1 ACCTGATCTTGGCTCAGTCTAGATCATTTCTTATGACTCGTGATTTTA-TCTCGTCATTTATTTT
* * * * * * * * *
9429498 CGACCTCGACTTTG-TTCTGGTCATTTCATTTTTGACATGTGGTTTCGTCCTAATT
65 TGACCTTGA-ATCGATCCTGGTCACTTCATTTTTGACATGTGGTTTCATCCTGATC
* * *
9429553 ACCTAATCTTGGCTCAGTCCAGATCATTTTTTATGACTCGTGATTTTATCTCAGTCA-TTATTTT
1 ACCTGATCTTGGCTCAGTCTAGATCATTTCTTATGACTCGTGATTTTATCTC-GTCATTTATTTT
* * * * *
9429617 TAACCTTGAATCGATCCTGGTCACTTAATTTTTGACATGTGATTTTATCCCGATC
65 TGACCTTGAATCGATCCTGGTCACTTCATTTTTGACATGTGGTTTCATCCTGATC
* * * * * *
9429672 ACCTGATCTTGGTTTAGTCTAGATCATTTTTTTTAACTCGTGATTTTATCTCAATCA-TTATTTT
1 ACCTGATCTTGGCTCAGTCTAGATCATTTCTTATGACTCGTGATTTTATCTC-GTCATTTATTTT
* * * * * * * *
9429736 TTATC-TCAACTTGGTCTTGGTCACTTCATTTTTGACATATGGTTTCATCCTGGTC
65 TGACCTTGAA-TCGATCCTGGTCACTTCATTTTTGACATGTGGTTTCATCCTGATC
* * * * *
9429791 A-CTGATCTTGTCTCAATCTAGATCATTTCTTATGACTTGTGGTTTTATCTTGGTCATTTATTTT
1 ACCTGATCTTGGCTCAGTCTAGATCATTTCTTATGACTCGTGATTTTATC-TCGTCATTTATTTT
* * * * * * * * *
9429855 TGACTTTGACTAGGTCTTGGTCGCTTTATTTTTGACAAGTGGTTTCATCCTGGTC
65 TGACCTTGAATCGATCCTGGTCACTTCATTTTTGACATGTGGTTTCATCCTGATC
* * * * * * *
9429910 ACTTGATCTTGGCTTAGTCTAGATCATTTCTTATAACTCATGATTTCATCCCTGTTATTTATTTT
1 ACCTGATCTTGGCTCAGTCTAGATCATTTCTTATGACTCGTGATTTTATCTC-GTCATTTATTTT
* * * ** * * *
9429975 TTACC-TCAACTCAATCCTGGTTGCTTCATTTTTAAC-TCGTGATTTCAT-CTCGGTC
65 TGACCTTGAA-TCGATCCTGGTCACTTCATTTTTGACAT-GTGGTTTCATCCT-GATC
*
9430030 ACTTGATCTTGGCTCAGTCTAGATCATTTCTTATGACT
1 ACCTGATCTTGGCTCAGTCTAGATCATTTCTTATGACT
9430068 TGTGGTTTCG
Statistics
Matches: 590, Mismatches: 137, Indels: 48
0.76 0.18 0.06
Matches are distributed among these distances:
116 73 0.12
117 14 0.02
118 49 0.08
119 208 0.35
120 242 0.41
121 4 0.01
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (119 bp):
ACCTGATCTTGGCTCAGTCTAGATCATTTCTTATGACTCGTGATTTTATCTCGTCATTTATTTTT
GACCTTGAATCGATCCTGGTCACTTCATTTTTGACATGTGGTTTCATCCTGATC
Found at i:9429888 original size:357 final size:355
Alignment explanation
Indices: 9429195--9430063 Score: 889
Period size: 357 Copynumber: 2.4 Consensus size: 355
9429185 CATTATTCAC
* *
9429195 TTACCTGATCTTAGCTCAGTTTAGATCATTTCTTATGACTCGT-AGTTTTATCTCGATCATTTAT
1 TTACCTGATCTTGGCTCAGTCTAGATCATTTCTTATGACTCGTGA-TTTTATCTCG-TCATTTAT
* * * ** * * *
9429259 TTTTGACCTTGACTTGATCCTAATCACTTCATTTTTGACACGTGGTTTCATCCCAATCACTTGAT
64 TTTTAACCTTGAATCGATCCTGGTCACTTCATTTTTGACATGTGATTTCATCCCGATCACTTGAT
* * * * * *
9429324 -TATGGCTTAGTCCAGATTATTTTTTATGACTTGTGGTTTCTTCTCGAACATTTTTTACCTCGAT
129 CT-TGGCTTAGTCTAGATCATTTTTTATAACTCGTGATTTCTTCTCGAACATTTTTTACCTCAAT
* ** ** * *
9429388 TCGATCTTGGTCACTTCATTTTTGACACGTGATTTTGTTTTTGTCACCTTATCTTGGCTCAATCC
193 TCGATCTTGGTCACTTCATTTTTGACACATGATTTCATCCTGGTCACCTGATCTTGGCTCAATCC
* **
9429453 ATATCATTTCTTATGACTCGTGGTTTCATTCTGGTCATTTAGTTTCGACCTCGACTTTGTTCTGG
258 AGATCATTTCTTATGACTCGTGGTTTCATTCTGGTCATTTAGTTTCGACCTCGACTAGGTTCTGG
* *
9429518 TCATTTCATTTTTGACATGTGGTTTCGTCCTAA
323 TCATTTCATTTTTGACAAGTGGTTTCATCCTAA
* * *
9429551 TTACCTAATCTTGGCTCAGTCCAGATCATTTTTTATGACTCGTGATTTTATCTCAGTCA-TTATT
1 TTACCTGATCTTGGCTCAGTCTAGATCATTTCTTATGACTCGTGATTTTATCTC-GTCATTTATT
* * *
9429615 TTTAACCTTGAATCGATCCTGGTCACTTAATTTTTGACATGTGATTTTATCCCGATCACCTGATC
65 TTTAACCTTGAATCGATCCTGGTCACTTCATTTTTGACATGTGATTTCATCCCGATCACTTGATC
* * *
9429680 TTGGTTTAGTCTAGATCATTTTTTTTAACTCGTGATTT-TATCTC-AATCATTATTTTTTATCTC
130 TTGGCTTAGTCTAGATCATTTTTTATAACTCGTGATTTCT-TCTCGAA-C---ATTTTTTACCTC
* * * *
9429743 AACTT-GGTCTTGGTCACTTCATTTTTGACATATGGTTTCATCCTGGTCA-CTGATCTTGTCTCA
190 AA-TTCGATCTTGGTCACTTCATTTTTGACACATGATTTCATCCTGGTCACCTGATCTTGGCTCA
* * * * * * *
9429806 ATCTAGATCATTTCTTATGACTTGTGGTTTTA-TCTTGGTCATTTATTTTTGACTTTGACTAGG-
254 ATCCAGATCATTTCTTATGACTCGTGGTTTCATTC-TGGTCATTTAGTTTCGACCTCGACTAGGT
* **
9429869 TCTTGGTCGCTTT-ATTTTTGACAAGTGGTTTCATCCTGG
318 TC-TGGTC-ATTTCATTTTTGACAAGTGGTTTCATCCTAA
* * * * * * * *
9429908 TCACTTGATCTTGGCTTAGTCTAGATCATTTCTTATAACTCATGATTTCATCCCTGTTATTTATT
1 TTACCTGATCTTGGCTCAGTCTAGATCATTTCTTATGACTCGTGATTTTATCTC-GTCATTTATT
* * * ** * * *
9429973 TTTTACC-TCAACTCAATCCTGGTTGCTTCATTTTTAAC-TCGTGATTTCATCTCGGTCACTTGA
65 TTTAACCTTGAA-TCGATCCTGGTCACTTCATTTTTGACAT-GTGATTTCATCCCGATCACTTGA
* *
9430036 TCTTGGCTCAGTCTAGATCATTTCTTAT
128 TCTTGGCTTAGTCTAGATCATTTTTTAT
9430064 GACTTGTGGT
Statistics
Matches: 420, Mismatches: 78, Indels: 28
0.80 0.15 0.05
Matches are distributed among these distances:
354 3 0.01
355 93 0.22
356 55 0.13
357 142 0.34
358 125 0.30
359 2 0.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.46
Consensus pattern (355 bp):
TTACCTGATCTTGGCTCAGTCTAGATCATTTCTTATGACTCGTGATTTTATCTCGTCATTTATTT
TTAACCTTGAATCGATCCTGGTCACTTCATTTTTGACATGTGATTTCATCCCGATCACTTGATCT
TGGCTTAGTCTAGATCATTTTTTATAACTCGTGATTTCTTCTCGAACATTTTTTACCTCAATTCG
ATCTTGGTCACTTCATTTTTGACACATGATTTCATCCTGGTCACCTGATCTTGGCTCAATCCAGA
TCATTTCTTATGACTCGTGGTTTCATTCTGGTCATTTAGTTTCGACCTCGACTAGGTTCTGGTCA
TTTCATTTTTGACAAGTGGTTTCATCCTAA
Found at i:9429891 original size:238 final size:238
Alignment explanation
Indices: 9429197--9430075 Score: 664
Period size: 238 Copynumber: 3.7 Consensus size: 238
9429187 TTATTCACTT
* * * * * * * *
9429197 ACCTGATCTTAGCTCAGTTTAGATCATTTCTTATGACTCGT-AGTTTTATCTCGATCATTTATTT
1 ACCTGATCTTGGCTTAGTCTAGATCATTTCTTATAACTCATGA-TTTCATCCCAATCATTTATTT
* ** ** ** * ***
9429261 TTGACCTTGACTTGATCCTAATCACTTCATTTTTGACACGTGGTTTCATCCCAATCACTTGAT-T
65 TTTACCTCAACTCAATCCTGGTCACTTCATTTTTGACATGTGGTTTCATCCTGGTCAC-TGATCT
* * * * * *
9429325 ATGGCTTAGTCCAGATTATTTTTTATGACTTGTGGTTTCT-TCTC-GAACA-T-TTTTT-ACCTC
129 -TGGCTCAGTCTAGATCATTTCTTATGACTTGTGGTTT-TATCTCAG-TCATTATTTTTAACCTT
* * * * * ** ***
9429385 GATTCGATCTTGGTCACTTCATTTTTGACACGTGATTTTGTTTTTG-TC
191 GAATAGATCCTGGTCACTTAATTTTTGACAAGTGA-TTTCATCCCGATC
* * * * * * * * * *** *
9429433 ACCTTATCTTGGCTCAATCCATATCATTTCTTATGACTCGTGGTTTCATTCTGGTCATTTAGTTT
1 ACCTGATCTTGGCTTAGTCTAGATCATTTCTTATAACTCATGATTTCATCCCAATCATTTATTTT
** * *** * * * ** * *
9429498 CGACCTCGACTTTGTTCTGGTCATTTCATTTTTGACATGTGGTTTCGTCCTAATTACCTAATCTT
66 TTACCTCAACTCAATCCTGGTCACTTCATTTTTGACATGTGGTTTCATCCTGGTCA-CTGATCTT
* * * *
9429563 GGCTCAGTCCAGATCATTTTTTATGACTCGTGATTTTATCTCAGTCATTATTTTTAACCTTGAAT
130 GGCTCAGTCTAGATCATTTCTTATGACTTGTGGTTTTATCTCAGTCATTATTTTTAACCTTGAAT
* * *
9429628 CGATCCTGGTCACTTAATTTTTGACATGTGATTTTATCCCGATC
195 AGATCCTGGTCACTTAATTTTTGACAAGTGATTTCATCCCGATC
* * * * * *
9429672 ACCTGATCTTGGTTTAGTCTAGATCATTTTTTTTAACTCGTGATTTTATCTCAATCA-TTATTTT
1 ACCTGATCTTGGCTTAGTCTAGATCATTTCTTATAACTCATGATTTCATCCCAATCATTTATTTT
* *** * *
9429736 TTATCTCAACTTGGTCTTGGTCACTTCATTTTTGACATATGGTTTCATCCTGGTCACTGATCTTG
66 TTACCTCAACTCAATCCTGGTCACTTCATTTTTGACATGTGGTTTCATCCTGGTCACTGATCTTG
* * ** * * *
9429801 TCTCAATCTAGATCATTTCTTATGACTTGTGGTTTTATCTTGGTCATTTATTTTTGACTTTGACT
131 GCTCAGTCTAGATCATTTCTTATGACTTGTGGTTTTATCTCAGTCA-TTATTTTTAACCTTGAAT
* * * * * * *
9429866 AGGTCTTGGTCGCTTTATTTTTGACAAGTGGTTTCATCCTGGTC
195 AGATCCTGGTCACTTAATTTTTGACAAGTGATTTCATCCCGATC
* ** *
9429910 ACTTGATCTTGGCTTAGTCTAGATCATTTCTTATAACTCATGATTTCATCCCTGTTATTTATTTT
1 ACCTGATCTTGGCTTAGTCTAGATCATTTCTTATAACTCATGATTTCATCCCAATCATTTATTTT
** * *
9429975 TTACCTCAACTCAATCCTGGTTGCTTCATTTTTAAC-TCGTGATTTCAT-CTCGGTCACTTGATC
66 TTACCTCAACTCAATCCTGGTCACTTCATTTTTGACAT-GTGGTTTCATCCT-GGTCAC-TGATC
9430038 TTGGCTCAGTCTAGATCATTTCTTATGACTTGTGGTTT
128 TTGGCTCAGTCTAGATCATTTCTTATGACTTGTGGTTT
9430076 CGTCCCAGTT
Statistics
Matches: 514, Mismatches: 115, Indels: 24
0.79 0.18 0.04
Matches are distributed among these distances:
235 1 0.00
236 137 0.27
237 50 0.10
238 158 0.31
239 127 0.25
240 41 0.08
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (238 bp):
ACCTGATCTTGGCTTAGTCTAGATCATTTCTTATAACTCATGATTTCATCCCAATCATTTATTTT
TTACCTCAACTCAATCCTGGTCACTTCATTTTTGACATGTGGTTTCATCCTGGTCACTGATCTTG
GCTCAGTCTAGATCATTTCTTATGACTTGTGGTTTTATCTCAGTCATTATTTTTAACCTTGAATA
GATCCTGGTCACTTAATTTTTGACAAGTGATTTCATCCCGATC
Found at i:9430876 original size:20 final size:20
Alignment explanation
Indices: 9430853--9430890 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9430843 AATTTTGAAG
9430853 AATTTT-GATTTTTTCTAGAA
1 AATTTTGGA-TTTTTCTAGAA
9430873 AATTTTGGATTTTTCTAG
1 AATTTTGGATTTTTCTAG
9430891 GTTGGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.55
Consensus pattern (20 bp):
AATTTTGGATTTTTCTAGAA
Found at i:9431010 original size:20 final size:19
Alignment explanation
Indices: 9430982--9431043 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
9430972 ACGAGATTCC
9430982 CAGAATCTGACAAAAATTTT
1 CAGAATCTGAC-AAAATTTT
* *
9431002 CAGATTCTGATAAAATTTT
1 CAGAATCTGACAAAATTTT
* * *
9431021 CAAAATCCGACAAAGTTTT
1 CAGAATCTGACAAAATTTT
9431040 CAGA
1 CAGA
9431044 TTTCGTTTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 25 0.74
20 9 0.26
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (19 bp):
CAGAATCTGACAAAATTTT
Found at i:9431280 original size:19 final size:20
Alignment explanation
Indices: 9431253--9431335 Score: 70
Period size: 19 Copynumber: 4.3 Consensus size: 20
9431243 TGATCACAAG
9431253 TTTTT-TTTTTCT-ATTTTA
1 TTTTTATTTTTCTAATTTTA
9431271 TTTTTATTTTT-TAATTTTA
1 TTTTTATTTTTCTAATTTTA
*
9431290 -TTTTATTTTTAACTCATTTT-
1 TTTTTATTTTT--CTAATTTTA
* *
9431310 TTAATT-TTTTTCTAGTTTTA
1 TT-TTTATTTTTCTAATTTTA
9431330 TTTTTA
1 TTTTTA
9431336 AGAAATTATA
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
18 16 0.31
19 19 0.37
20 2 0.04
21 12 0.24
22 2 0.04
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (20 bp):
TTTTTATTTTTCTAATTTTA
Found at i:9431296 original size:29 final size:29
Alignment explanation
Indices: 9431256--9431335 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 29
9431246 TCACAAGTTT
9431256 TTTTTTTCTATTTTATTTTTATTTTTTAA
1 TTTTTTTCTATTTTATTTTTATTTTTTAA
** *
9431285 TTTTATTT-TATTTT-TAACTCATTTTTTAA
1 TTTT-TTTCTATTTTAT-TTTTATTTTTTAA
9431314 TTTTTTTCTAGTTTTATTTTTA
1 TTTTTTTCTA-TTTTATTTTTA
9431336 AGAAATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
28 4 0.10
29 26 0.65
30 9 0.22
31 1 0.03
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (29 bp):
TTTTTTTCTATTTTATTTTTATTTTTTAA
Found at i:9431437 original size:16 final size:17
Alignment explanation
Indices: 9431416--9431450 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
9431406 ATATATATAT
9431416 AAATC-TTTTCAAATAA
1 AAATCTTTTTCAAATAA
9431432 AAATCTTTTTTCAAATAA
1 AAATC-TTTTTCAAATAA
9431450 A
1 A
9431451 GTTTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
18 12 0.71
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATCTTTTTCAAATAA
Found at i:9433909 original size:26 final size:26
Alignment explanation
Indices: 9433866--9433931 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
9433856 TTAATTTAAC
* * *
9433866 TATTAAAATAT-TAAAAATTATTTAT
1 TATTAAAATATATTAAAATAATTGAT
*
9433891 TATTAAAATATATTGAAATAATTGAT
1 TATTAAAATATATTAAAATAATTGAT
9433917 TATTAAAAT-TATTAA
1 TATTAAAATATATTAA
9433932 TATTAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 16 0.46
26 19 0.54
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (26 bp):
TATTAAAATATATTAAAATAATTGAT
Found at i:9433925 original size:16 final size:15
Alignment explanation
Indices: 9433900--9433989 Score: 51
Period size: 17 Copynumber: 5.8 Consensus size: 15
9433890 TTATTAAAAT
*
9433900 ATATTGAAATAATTGA
1 ATATTAAAATAATT-A
* *
9433916 TTATTAAAATTATTA
1 ATATTAAAATAATTA
9433931 ATATTAAAAAATAATTA
1 ATATT--AAAATAATTA
* *
9433948 TATTTTAATAATATTTA
1 -ATATTAA-AATAATTA
9433965 ATACTT-AAAT-ATT-
1 ATA-TTAAAATAATTA
*
9433978 ATATTAATATAA
1 ATATTAAAATAA
9433990 ACAAACACTT
Statistics
Matches: 57, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
12 2 0.04
13 6 0.11
14 3 0.05
15 8 0.14
16 16 0.28
17 18 0.32
18 4 0.07
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (15 bp):
ATATTAAAATAATTA
Found at i:9434329 original size:15 final size:14
Alignment explanation
Indices: 9434295--9434321 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9434285 TATAAAAATA
9434295 CAAAAATTATTTTT
1 CAAAAATTATTTTT
9434309 CAAAAATTATTTT
1 CAAAAATTATTTT
9434322 CGTAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
CAAAAATTATTTTT
Found at i:9442458 original size:162 final size:163
Alignment explanation
Indices: 9442289--9442794 Score: 508
Period size: 164 Copynumber: 3.1 Consensus size: 163
9442279 TCACATGTTA
* * * * * *
9442289 TTTATATATGCTACATAAATGATGATTTTTTTTCTATAAACGT-TGT-CT-ATATAGAAATAGAC
1 TTTATATATGCTATAAAAACGATGATTTTTTTT-TATAAACGTCT-TAATAAAAAAGAAA-AGAC
* * * * *
9442351 AATAATTAAATTATAACAGGGGTCATCTATATTCAAAAAGTAGTCAAAGATAATATCGGACCAAA
63 AACAATTAAATAATAACAAGGATCATCTATATTCAAAAAGTAATCAAAGATAATATCGGACCAAA
* *
9442416 ATCAAATGACCATTATTTATGAATATCATGTTTTAC
128 ATCAAATGAACATTATTTATGAACATCATGTTTTAC
* *
9442452 TTATATATATGCTATAAAAACGATGA-TTATTTTTATAAATGTCACTTAAATAAAAAAGAAAAGA
1 TT-TATATATGCTATAAAAACGATGATTTTTTTTTATAAACGT--CTT-AATAAAAAAGAAAAGA
* * ** * *
9442516 CGACAATTAGATAATAACAATTATCATCTATATTCAAAAAGTAATCAAAGGTAATATCGGACCAT
62 CAACAATTAAATAATAACAAGGATCATCTATATTCAAAAAGTAATCAAAGATAATATCGGACCAA
9442581 AATCAAATGAACATTATTTATGAACATCATGTTTTAC
127 AATCAAATGAACATTATTTATGAACATCATGTTTTAC
* * *
9442618 -TTATATATGCTATAAAAACGATGA-TTATTTTTATAAATGTCACTTAAATAAAAAAAAAAAGAC
1 TTTATATATGCTATAAAAACGATGATTTTTTTTTATAAACGT--CTT-AATAAAAAAGAAAAGAC
* ** ** * * *
9442681 AACAATTAGATAATAACAATTATCATCTATATTTTTAGAA--AATCAAAGAAAATATCGGATCAA
63 AACAATTAAATAATAACAAGGATCATCTATA-TTCAAAAAGTAATCAAAGATAATATCGGACCAA
* * * * * *
9442744 AACCAAATGAACGTTATTTATAAATATCACGTGTTA-
127 AATCAAATGAACATTATTTATGAACATCATGTTTTAC
9442780 TTTATATATGCTATA
1 TTTATATATGCTATA
9442795 TAGTCCATAG
Statistics
Matches: 298, Mismatches: 36, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
162 8 0.03
163 71 0.24
164 112 0.38
165 7 0.02
166 93 0.31
167 7 0.02
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (163 bp):
TTTATATATGCTATAAAAACGATGATTTTTTTTTATAAACGTCTTAATAAAAAAGAAAAGACAAC
AATTAAATAATAACAAGGATCATCTATATTCAAAAAGTAATCAAAGATAATATCGGACCAAAATC
AAATGAACATTATTTATGAACATCATGTTTTAC
Found at i:9442556 original size:166 final size:164
Alignment explanation
Indices: 9442373--9442794 Score: 636
Period size: 164 Copynumber: 2.6 Consensus size: 164
9442363 ATAACAGGGG
*
9442373 TCATCTATATTCAAAAAGTAGTCAAAGATAATATCGGACCAAAATCAAATGACCATTATTTATGA
1 TCATCTATATTCAAAAAGTA-TCAAAGATAATATCGGACCAAAATCAAATGAACATTATTTATGA
9442438 ATATCATGTTTTACTTATATATATGCTATAAAAACGATGATTATTTTTATAAATGTCACTTAAAT
65 ATATCATGTTTTACTT-TATATATGCTATAAAAACGATGATTATTTTTATAAATGTCACTTAAAT
* *
9442503 AAAAAAGAAAAGACGACAATTAGATAATAACAATTA
129 AAAAAAAAAAAGACAACAATTAGATAATAACAATTA
* *
9442539 TCATCTATATTCAAAAAGTAATCAAAGGTAATATCGGACCATAATCAAATGAACATTATTTATGA
1 TCATCTATATTCAAAAAGT-ATCAAAGATAATATCGGACCAAAATCAAATGAACATTATTTATGA
*
9442604 ACATCATGTTTTAC-TTATATATGCTATAAAAACGATGATTATTTTTATAAATGTCACTTAAATA
65 ATATCATGTTTTACTTTATATATGCTATAAAAACGATGATTATTTTTATAAATGTCACTTAAATA
9442668 AAAAAAAAAAGACAACAATTAGATAATAACAATTA
130 AAAAAAAAAAGACAACAATTAGATAATAACAATTA
* * * * * * *
9442703 TCATCTATATTTTTAGAAA--ATCAAAGAAAATATCGGATCAAAACCAAATGAACGTTATTTATA
1 TCATCTATA--TTCAAAAAGTATCAAAGATAATATCGGACCAAAATCAAATGAACATTATTTATG
* *
9442766 AATATCACGTGTTA-TTTATATATGCTATA
64 AATATCATGTTTTACTTTATATATGCTATA
9442795 TAGTCCATAG
Statistics
Matches: 234, Mismatches: 18, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
163 62 0.26
164 91 0.39
165 1 0.00
166 79 0.34
167 1 0.00
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (164 bp):
TCATCTATATTCAAAAAGTATCAAAGATAATATCGGACCAAAATCAAATGAACATTATTTATGAA
TATCATGTTTTACTTTATATATGCTATAAAAACGATGATTATTTTTATAAATGTCACTTAAATAA
AAAAAAAAAGACAACAATTAGATAATAACAATTA
Found at i:9445755 original size:11 final size:11
Alignment explanation
Indices: 9445739--9445769 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
9445729 AATCTCATAA
9445739 GAGATTTGTTT
1 GAGATTTGTTT
9445750 GAGATTTGTTT
1 GAGATTTGTTT
9445761 GAGATTTGT
1 GAGATTTGT
9445770 CAGATATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:9445883 original size:52 final size:52
Alignment explanation
Indices: 9445794--9445950 Score: 201
Period size: 52 Copynumber: 3.0 Consensus size: 52
9445784 TGGACAAGAA
*
9445794 GACTTGCAAAAAAAGAATTCTAAGA-GAAAGAGAATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAAAAGAATTCTAAGAGGAAAGAG-ATTCTTAATAGGCAAGTTT
* * *
9445846 GACTTGCAAAAAAAGAATTTTAAAAGGAAAGAGATTCTTAGTAGGCAAGTTT
1 GACTTGCAAAAAAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
* ** * *
9445898 GACTTACAGGAGAAGAATTCTAAGAGGAAATG-GATTCTTAATGGGCAAGTTT
1 GACTTGCAAAAAAAGAATTCTAAGAGGAAA-GAGATTCTTAATAGGCAAGTTT
9445950 G
1 G
9445951 TATGGTTATA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
52 83 0.91
53 8 0.09
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (52 bp):
GACTTGCAAAAAAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:9446504 original size:52 final size:51
Alignment explanation
Indices: 9446442--9446546 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 51
9446432 AGCCCAACAA
* * *
9446442 GTGGTATCAGAGCTGAAGGTTTGAAACGTGAGAAGAG-TTAAAGATTCAAGAT
1 GTGGTATCAGAACCGAAGGTTTGAAACGT-AGAAGAGCTGAAAG-TTCAAGAT
* *
9446494 GTGGTATCAGAACCGAAGGTTTGAAATGTAGAAGAGCTGAAAGTTCGAGAT
1 GTGGTATCAGAACCGAAGGTTTGAAACGTAGAAGAGCTGAAAGTTCAAGAT
9446545 GT
1 GT
9446547 AGGAAGAGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
51 16 0.34
52 31 0.66
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (51 bp):
GTGGTATCAGAACCGAAGGTTTGAAACGTAGAAGAGCTGAAAGTTCAAGAT
Found at i:9446634 original size:18 final size:19
Alignment explanation
Indices: 9446611--9446647 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
9446601 AAGTAAGTCC
9446611 AGAAGAGCTCGA-TTTAAG
1 AGAAGAGCTCGAGTTTAAG
*
9446629 AGAAGAGTTCGAGTTTAAG
1 AGAAGAGCTCGAGTTTAAG
9446648 TTTTGAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (19 bp):
AGAAGAGCTCGAGTTTAAG
Found at i:9446952 original size:52 final size:52
Alignment explanation
Indices: 9446863--9447019 Score: 201
Period size: 52 Copynumber: 3.0 Consensus size: 52
9446853 TAGACAAAAA
* * * * *
9446863 GACTTGCAAAAAAAGAATTCTAAGA-GAAAGAGAATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGGAAAAAG-ATTCTTAATAGGCAAGTTT
9446915 GACTTGCAAGAGAAGAATTCTAAAAGGAAAAAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGGAAAAAGATTCTTAATAGGCAAGTTT
* ** *
9446967 GACTTAC-AGTAGAAGAATTCTAAAAGGAAATGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAG-AGAAGAATTCTAAAAGGAAAAAGATTCTTAATAGGCAAGTTT
9447019 G
1 G
9447020 TATGGTTATA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.91
53 6 0.06
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAAAGGAAAAAGATTCTTAATAGGCAAGTTT
Found at i:9453118 original size:80 final size:79
Alignment explanation
Indices: 9452978--9453228 Score: 322
Period size: 80 Copynumber: 3.2 Consensus size: 79
9452968 AGAAACACCA
* * * * *
9452978 TTCAACAAACCATTTAGCATATGATTCAGCCCCCCAATATCATATAAAACAATTCAGCAAAATAA
1 TTCAACAAACCATTTAGCATATGATTTAG-CCCCTAATATCATACAATACCATTCAGCAAAATAA
9453043 TATCAGACAATAAGG
65 TATCAGACAATAAGG
* * * ** *
9453058 TTCAGCAAACCATTCAACATATGATTTAGCTCCCTAATATCATACAATACCATTTGGCAAAACAA
1 TTCAACAAACCATTTAGCATATGATTTAGC-CCCTAATATCATACAATACCATTCAGCAAAATAA
*
9453123 TAACAGACAATAAGG
65 TATCAGACAATAAGG
* * * *
9453138 TTCAACAAACCATTTAGCATACGATTTAACCGCTAATATCATACAATACCATTCATCAAAATAAT
1 TTCAACAAACCATTTAGCATATGATTTAGCCCCTAATATCATACAATACCATTCAGCAAAATAAT
*
9453203 ATCAGACAAAAAGG
66 ATCAGACAATAAGG
*
9453217 TTCAGCAAACCA
1 TTCAACAAACCA
9453229 CAATATTTAA
Statistics
Matches: 145, Mismatches: 25, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 54 0.37
80 91 0.63
ACGTcount: A:0.44, C:0.23, G:0.09, T:0.24
Consensus pattern (79 bp):
TTCAACAAACCATTTAGCATATGATTTAGCCCCTAATATCATACAATACCATTCAGCAAAATAAT
ATCAGACAATAAGG
Found at i:9454407 original size:146 final size:146
Alignment explanation
Indices: 9454143--9454431 Score: 427
Period size: 146 Copynumber: 2.0 Consensus size: 146
9454133 AATTTTGAAG
* * * *
9454143 GAAATTATTGAAGGCATTTATTATCAATAAACGCCTTCAATATTTATGTAGAAAATTTAAGAGGA
1 GAAATTATTGAAGGCATTTATGATCAATAAACGCCTTCAATATTTATGTAAAAAATTTAAAAGAA
* *
9454208 ATTATTAAAGGCGTTTGTCAATAGAAGATGCCTTTAATAATTCTAAAATTTTTTAAAGAAAAATT
66 ATTATTAAAGGCGTTTGTCAATAGAAAACGCCTTTAATAATTCTAAAATTTTTTAAAGAAAAATT
9454273 ACTAAAGGCATTTGTT
131 ACTAAAGGCATTTGTT
* * *
9454289 GAAATTATTGAAGGTATTTATGATCAATAAATGCCTTTAATATTTATGTAAAAAATTTAAAAGAA
1 GAAATTATTGAAGGCATTTATGATCAATAAACGCCTTCAATATTTATGTAAAAAATTTAAAAGAA
* * * *
9454354 ATTATTGAAGGCGTTTGTCAGTAGAAAACGCCTTTAATAA-TCTCAAAATTTTTTAGAGAGAAAT
66 ATTATTAAAGGCGTTTGTCAATAGAAAACGCCTTTAATAATTCT-AAAATTTTTTAAAGAAAAAT
* *
9454418 TATTGAAGGCATTT
130 TACTAAAGGCATTT
9454432 ATTATTAACA
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
145 3 0.02
146 124 0.98
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.36
Consensus pattern (146 bp):
GAAATTATTGAAGGCATTTATGATCAATAAACGCCTTCAATATTTATGTAAAAAATTTAAAAGAA
ATTATTAAAGGCGTTTGTCAATAGAAAACGCCTTTAATAATTCTAAAATTTTTTAAAGAAAAATT
ACTAAAGGCATTTGTT
Found at i:9462359 original size:25 final size:26
Alignment explanation
Indices: 9462331--9462394 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 26
9462321 TAAATACTTT
9462331 TATTTTGTATACTA-TT-AAAAATAAA
1 TATTTTGTATA-TATTTCAAAAATAAA
*
9462356 TATTTT-TA-ATATTTCAATAATAAA
1 TATTTTGTATATATTTCAAAAATAAA
9462380 TAGTTTTGTAT-TATT
1 TA-TTTTGTATATATT
9462395 ATTATTTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
22 2 0.06
23 3 0.09
24 12 0.36
25 10 0.30
26 6 0.18
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (26 bp):
TATTTTGTATATATTTCAAAAATAAA
Found at i:9462601 original size:17 final size:17
Alignment explanation
Indices: 9462535--9462602 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 17
9462525 TATTTTATCA
*
9462535 TTTAATAATAGATAT-T
1 TTTAATAATAAATATAT
*
9462551 TTTAAT-ATAAAAAATAT
1 TTTAATAAT-AAATATAT
* *
9462568 TTCAATAGTATAA-ATAT
1 TTTAATAATA-AATATAT
9462585 TTTAATAATAAATATAT
1 TTTAATAATAAATATAT
9462602 T
1 T
9462603 ATTTTAATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
15 2 0.05
16 12 0.29
17 24 0.59
18 3 0.07
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (17 bp):
TTTAATAATAAATATAT
Found at i:9463899 original size:29 final size:28
Alignment explanation
Indices: 9463861--9463932 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 28
9463851 TTTATATTAA
*
9463861 TATTTTAAAATATTTAAAATAGTGTTAT
1 TATTTTAAAATATTTAAAATAGTGTTAC
*
9463889 TTTTTTAAAAATATTTAAAATAGTGTTAC
1 TATTTT-AAAATATTTAAAATAGTGTTAC
9463918 TATTTTCAAAATATT
1 TATTTT-AAAATATT
9463933 ATTTTTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (28 bp):
TATTTTAAAATATTTAAAATAGTGTTAC
Found at i:9464541 original size:13 final size:12
Alignment explanation
Indices: 9464518--9464559 Score: 52
Period size: 11 Copynumber: 3.5 Consensus size: 12
9464508 CAACAAAAAA
9464518 AAAATAAAAAGAG
1 AAAA-AAAAAGAG
9464531 ACAAAAAAAAGAG
1 A-AAAAAAAAGAG
9464544 -AAAAAAAAG-G
1 AAAAAAAAAGAG
9464554 AAAAAA
1 AAAAAA
9464560 GAATAAGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 1 0.04
11 14 0.52
13 9 0.33
14 3 0.11
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:9465359 original size:17 final size:18
Alignment explanation
Indices: 9465323--9465362 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
9465313 TTTCTCCTTC
9465323 TTATGCTTTAAAATTTTT
1 TTATGCTTTAAAATTTTT
9465341 TTATGCTTTAAAATTTTT
1 TTATGCTTTAAAATTTTT
9465359 TTAT
1 TTAT
9465363 ATTGTGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (18 bp):
TTATGCTTTAAAATTTTT
Found at i:9468103 original size:2 final size:2
Alignment explanation
Indices: 9468096--9468127 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9468086 ATCTTGCAAT
*
9468096 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9468128 ATGATCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9468325 original size:29 final size:28
Alignment explanation
Indices: 9468284--9468338 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
9468274 ATGTGTCTGT
9468284 AATTAACATATATTAATGTTAATAAATA
1 AATTAACATATATTAATGTTAATAAATA
* *
9468312 AATTAAACATATATTTATTTTAATAAA
1 AATT-AACATATATTAATGTTAATAAA
9468339 ATTCATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (28 bp):
AATTAACATATATTAATGTTAATAAATA
Found at i:9468693 original size:19 final size:20
Alignment explanation
Indices: 9468650--9468691 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9468640 AAATAAGATT
9468650 AAATTCATAATTTATACTAA
1 AAATTCATAATTTATACTAA
*
9468670 AAATTCA-AATGTTATATTAA
1 AAATTCATAAT-TTATACTAA
9468690 AA
1 AA
9468692 TTATATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (20 bp):
AAATTCATAATTTATACTAA
Found at i:9476418 original size:2 final size:2
Alignment explanation
Indices: 9476411--9476442 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9476401 TCATGCCCTT
*
9476411 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9476443 AAGGTACTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9489375 original size:39 final size:36
Alignment explanation
Indices: 9489295--9489409 Score: 115
Period size: 39 Copynumber: 3.0 Consensus size: 36
9489285 TTATTAAAAA
* * *
9489295 TATTCATATTATGAAAATAAT-AATATAATATTATTATT
1 TATT-ATATTAT-TAAATAATAAATATTAT-TTAATATT
*
9489333 TATTTTGATTATTAAAGTAATAAATATTATTTAATATAT
1 TATTAT-ATTATTAAA-TAATAAATATTATTTAATAT-T
9489372 TATTATATATATTAAATAATATAATATTATTTAATATT
1 TATTATAT-TATTAAATAATA-AATATTATTTAATATT
9489410 GAAATATTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
37 4 0.06
38 27 0.41
39 35 0.53
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (36 bp):
TATTATATTATTAAATAATAAATATTATTTAATATT
Found at i:9489383 original size:24 final size:24
Alignment explanation
Indices: 9489364--9489425 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
9489354 AAATATTATT
*
9489364 TAATATATTATTATATATATTAAA
1 TAATATAATATTATATATATTAAA
*
9489388 TAATATAATATTATTTAATATTGAAA
1 TAATATAATATTATAT-ATATT-AAA
* *
9489414 TATTAAAATATT
1 TAATATAATATT
9489426 TATGTTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 14 0.44
25 5 0.16
26 13 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TAATATAATATTATATATATTAAA
Found at i:9489706 original size:19 final size:19
Alignment explanation
Indices: 9489668--9489705 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
9489658 TTTAAATAAA
9489668 ATTAAATAAAAATATTTTT
1 ATTAAATAAAAATATTTTT
*
9489687 ATTAATATAATAATATTTT
1 ATTAA-ATAAAAATATTTT
9489706 AAATTGGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTAAATAAAAATATTTTT
Found at i:9489875 original size:23 final size:23
Alignment explanation
Indices: 9489849--9489903 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
9489839 AAAATTAAAA
* *
9489849 AATAATTTTATTTTACATTGATT
1 AATAATTTTATTTTACATTAATC
* *
9489872 AATAA-ATTATTTTTCATTAATC
1 AATAATTTTATTTTACATTAATC
9489894 AACTAATTTT
1 AA-TAATTTT
9489904 TTAATAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 15 0.60
23 8 0.32
24 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (23 bp):
AATAATTTTATTTTACATTAATC
Found at i:9499229 original size:2 final size:2
Alignment explanation
Indices: 9499208--9499246 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
9499198 TTTTCGTTTG
* * *
9499208 TA TA GA TA TA GA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9499247 TTGTATGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (2 bp):
TA
Found at i:9503342 original size:10 final size:11
Alignment explanation
Indices: 9503325--9503356 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
9503315 TATGTTTCCA
9503325 TTAC-TTTCTT
1 TTACTTTTCTT
9503335 TTA-TTTTCTT
1 TTACTTTTCTT
9503345 TTACTTTTCTT
1 TTACTTTTCTT
9503356 T
1 T
9503357 CCCTCATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (11 bp):
TTACTTTTCTT
Found at i:9504487 original size:18 final size:19
Alignment explanation
Indices: 9504453--9504488 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9504443 TTTTAGAAAT
*
9504453 TAAAAGTAATATTTTTAAG
1 TAAAAATAATATTTTTAAG
9504472 TAAAAATAAT-TTTTTAA
1 TAAAAATAATATTTTTAA
9504489 ACCCTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (19 bp):
TAAAAATAATATTTTTAAG
Found at i:9510352 original size:16 final size:16
Alignment explanation
Indices: 9510331--9510366 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
9510321 AATAATTGAC
9510331 TTCAATTGATCTTGCT
1 TTCAATTGATCTTGCT
9510347 TTCAATTGATCTTGCT
1 TTCAATTGATCTTGCT
9510363 TTCA
1 TTCA
9510367 TTTACTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.50
Consensus pattern (16 bp):
TTCAATTGATCTTGCT
Found at i:9511293 original size:20 final size:21
Alignment explanation
Indices: 9511245--9511293 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
9511235 GATATAGTTT
9511245 AAAATTTTAATAAAAAATATA
1 AAAATTTTAATAAAAAATATA
*
9511266 TAAA-TTTAAT-AAAAATA-A
1 AAAATTTTAATAAAAAATATA
9511284 AAATATTTTA
1 AAA-ATTTTA
9511294 TATTTTGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 3 0.12
19 8 0.33
20 10 0.42
21 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAATTTTAATAAAAAATATA
Found at i:9511780 original size:16 final size:17
Alignment explanation
Indices: 9511736--9511792 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
9511726 AAATATATGG
*
9511736 AAATAATT-TATTATTA
1 AAATAATTATATTATAA
*
9511752 AAATTATTAATATTA-AA
1 AAATAATT-ATATTATAA
*
9511769 AAATAATTATATTTTAA
1 AAATAATTATATTATAA
*
9511786 TAATAAT
1 AAATAAT
9511793 ATTTAATACT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
16 12 0.36
17 16 0.48
18 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATAATTATATTATAA
Found at i:9511877 original size:29 final size:29
Alignment explanation
Indices: 9511844--9511926 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
9511834 AAATAAAACT
*
9511844 ATTTATTATTTATGTTAATATTTTAAATC
1 ATTTATTATTTATATTAATATTTTAAATC
* *
9511873 ATTTATTGTTTATATTACTATTTTAAAAT-
1 ATTTATTATTTATATTAATATTTT-AAATC
* *
9511902 ATTAAAATTATTTATAATAATATTT
1 ATT--TATTATTTATATTAATATTT
9511927 GTAGTTGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 24 0.55
30 4 0.09
31 16 0.36
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (29 bp):
ATTTATTATTTATATTAATATTTTAAATC
Found at i:9512907 original size:13 final size:14
Alignment explanation
Indices: 9512886--9512923 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
9512876 TCATCTTCGC
9512886 AAAAAAATAAAA-T
1 AAAAAAATAAAACT
*
9512899 AAAATAATAAAACT
1 AAAAAAATAAAACT
9512913 AAAAAAA-AAAA
1 AAAAAAATAAAA
9512924 AAAGAGAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAAATAAAACT
Found at i:9513291 original size:19 final size:18
Alignment explanation
Indices: 9513250--9513292 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
9513240 TGATTCACAA
9513250 ATTTAAAAAATTAAAAAT
1 ATTTAAAAAATTAAAAAT
* * *
9513268 CTTTATAAATATTAAAATT
1 ATTTA-AAAAATTAAAAAT
9513287 ATTTAA
1 ATTTAA
9513293 TTAAAAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTAAAAAATTAAAAAT
Found at i:9514192 original size:18 final size:18
Alignment explanation
Indices: 9514169--9514205 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9514159 TGTTTCTTTA
9514169 AATTATAGTTTTATGTAT
1 AATTATAGTTTTATGTAT
* *
9514187 AATTATGGTTTTATTTAT
1 AATTATAGTTTTATGTAT
9514205 A
1 A
9514206 GTTTTATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
AATTATAGTTTTATGTAT
Found at i:9519588 original size:3 final size:3
Alignment explanation
Indices: 9519574--9519657 Score: 70
Period size: 3 Copynumber: 29.3 Consensus size: 3
9519564 CATTTTCAGT
* * *
9519574 ATA ATA ACA ATA ATA ATT TTA ATA ATA ATA ATA ATA ATA A-A A-A AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
9519619 ATA TTA A-A A-A ATA TTA TTA ATA ATAA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA A
9519658 AAAAGAGACA
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
2 10 0.15
3 54 0.81
4 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:9521109 original size:16 final size:16
Alignment explanation
Indices: 9521090--9521174 Score: 70
Period size: 16 Copynumber: 5.5 Consensus size: 16
9521080 CTAGGATTCT
9521090 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
* * * *
9521106 AAAATCTCTTAACTCC
1 AAAACCCCTAAAATCC
*
9521122 -AAACCTCCTAAAATCT
1 AAAACC-CCTAAAATCC
*
9521138 AAAACCTCTAAAATCC
1 AAAACCCCTAAAATCC
*
9521154 -AAA-CCCTTAAAT-C
1 AAAACCCCTAAAATCC
9521167 AAAACCCC
1 AAAACCCC
9521175 AAACCTCAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
13 1 0.02
14 10 0.19
15 10 0.19
16 26 0.50
17 5 0.10
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:9521132 original size:32 final size:31
Alignment explanation
Indices: 9521091--9521172 Score: 96
Period size: 32 Copynumber: 2.7 Consensus size: 31
9521081 TAGGATTCTA
* * *
9521091 AAACCCCTAAAATCCAAAATCTCTTAACTCC
1 AAACCCCTAAAATCCAAAACCTCTAAAATCC
*
9521122 AAACCTCCTAAAATCTAAAACCTCTAAAATCC
1 AAACC-CCTAAAATCCAAAACCTCTAAAATCC
*
9521154 AAA-CCCTTAAAT-CAAAACC
1 AAACCCCTAAAATCCAAAACC
9521173 CCAAACCTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
29 6 0.14
30 7 0.16
31 6 0.14
32 25 0.57
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (31 bp):
AAACCCCTAAAATCCAAAACCTCTAAAATCC
Found at i:9521171 original size:14 final size:14
Alignment explanation
Indices: 9521128--9521234 Score: 83
Period size: 14 Copynumber: 7.4 Consensus size: 14
9521118 CTCCAAACCT
9521128 CCTAAAATCTAAAAC
1 CCTAAAATC-AAAAC
*
9521143 CTCTAAAATCCAAAC
1 C-CTAAAATCAAAAC
*
9521158 CCTTAAATCAAAAC
1 CCTAAAATCAAAAC
* *
9521172 CCCAAACCTCAAAA-
1 CCTAAA-ATCAAAAC
*
9521186 -CTAAAACCAAAAC
1 CCTAAAATCAAAAC
*
9521199 CCTAAAATCTTTAAAC
1 CCTAAAATC--AAAAC
**
9521215 TGTAAAATCAAAAC
1 CCTAAAATCAAAAC
9521229 CCTAAA
1 CCTAAA
9521235 CCTTCCATAC
Statistics
Matches: 70, Mismatches: 16, Indels: 13
0.71 0.16 0.13
Matches are distributed among these distances:
12 5 0.07
13 4 0.06
14 30 0.43
15 12 0.17
16 19 0.27
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (14 bp):
CCTAAAATCAAAAC
Found at i:9521279 original size:8 final size:8
Alignment explanation
Indices: 9521266--9521367 Score: 64
Period size: 8 Copynumber: 13.8 Consensus size: 8
9521256 AGATAAAACC
9521266 AAACCCTA
1 AAACCCTA
9521274 AAACCCTCA
1 AAACCCT-A
*
9521283 AAA--CTC
1 AAACCCTA
9521289 AAA-CC-A
1 AAACCCTA
9521295 AAACCCTA
1 AAACCCTA
*
9521303 AAACCCTTT
1 AAACCC-TA
*
9521312 AAACCATA
1 AAACCCTA
9521320 AAA-CC--
1 AAACCCTA
9521325 AAACCCTA
1 AAACCCTA
9521333 AAACCCTCA
1 AAACCCT-A
*
9521342 AAA--CTC
1 AAACCCTA
9521348 AAA-CC-A
1 AAACCCTA
9521354 AAACCCTA
1 AAACCCTA
9521362 AAACCC
1 AAACCC
9521368 GAATCTTCAA
Statistics
Matches: 74, Mismatches: 8, Indels: 24
0.70 0.08 0.23
Matches are distributed among these distances:
5 3 0.04
6 14 0.19
7 11 0.15
8 32 0.43
9 14 0.19
ACGTcount: A:0.51, C:0.37, G:0.00, T:0.12
Consensus pattern (8 bp):
AAACCCTA
Found at i:9521302 original size:29 final size:28
Alignment explanation
Indices: 9521261--9521367 Score: 151
Period size: 29 Copynumber: 3.7 Consensus size: 28
9521251 ATTCAAGATA
9521261 AAACCAAACCCTAAAACCCTCAAAACTC
1 AAACCAAACCCTAAAACCCTCAAAACTC
* * *
9521289 AAACCAAAACCCTAAAACCCTTTAAACCATA
1 AAACC-AAACCCTAAAACCC-TCAAAAC-TC
9521320 AAACCAAACCCTAAAACCCTCAAAACTC
1 AAACCAAACCCTAAAACCCTCAAAACTC
9521348 AAACCAAAACCCTAAAACCC
1 AAACC-AAACCCTAAAACCC
9521368 GAATCTTCAA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
28 11 0.16
29 33 0.48
30 19 0.28
31 6 0.09
ACGTcount: A:0.51, C:0.37, G:0.00, T:0.11
Consensus pattern (28 bp):
AAACCAAACCCTAAAACCCTCAAAACTC
Found at i:9524902 original size:15 final size:13
Alignment explanation
Indices: 9524881--9524916 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 13
9524871 ATTTAAAATA
9524881 AAAAAAATTATATT
1 AAAAAAATTATA-T
9524895 ATAAAAAATTATAT
1 A-AAAAAATTATAT
9524909 AAAAAAAT
1 AAAAAAAT
9524917 ATCGATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAAAATTATAT
Found at i:9525440 original size:26 final size:26
Alignment explanation
Indices: 9525390--9525453 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
9525380 TTCATATAAC
* *
9525390 TATTAAAATAT-TACAAATTATTTAT
1 TATTAAAATATATTCAAATAATTTAT
*
9525415 TATTAAAATATATTGAAATAATTTAT
1 TATTAAAATATATTCAAATAATTTAT
9525441 TATTAAAAT-TATT
1 TATTAAAATATATT
9525454 AATATTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TATTAAAATATATTCAAATAATTTAT
Found at i:9525449 original size:16 final size:17
Alignment explanation
Indices: 9525425--9525486 Score: 58
Period size: 16 Copynumber: 3.7 Consensus size: 17
9525415 TATTAAAATA
*
9525425 TATTGAAATAATT-TAT
1 TATTAAAATAATTATAT
*
9525441 TATTAAAATTATTAATAT
1 TATTAAAATAATT-ATAT
*
9525459 TA-AAAAATAATTATAT
1 TATTAAAATAATTATAT
9525475 T-TTAATAATAAT
1 TATTAA-AATAAT
9525487 ATTTAATACT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 18 0.49
17 14 0.38
18 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TATTAAAATAATTATAT
Found at i:9525571 original size:29 final size:29
Alignment explanation
Indices: 9525538--9525593 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
9525528 AAATAAAACT
9525538 ATTTATTATTTATATTAATAGTTTAAATC
1 ATTTATTATTTATATTAATAGTTTAAATC
*
9525567 ATTTATTATTTATATTAATATTTTAAA
1 ATTTATTATTTATATTAATAGTTTAAA
9525594 ATATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (29 bp):
ATTTATTATTTATATTAATAGTTTAAATC
Found at i:9526198 original size:38 final size:38
Alignment explanation
Indices: 9526112--9526196 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 38
9526102 AAAGTAATAT
*
9526112 AAAAAATATATTTT----AAAATTTTAATAAAAATAAA
1 AAAAAATATATTTTAACAAAAAATTTAATAAAAATAAA
* * *
9526146 AAAATATTTATTTTAACAAAAAATTTAATGAAAATAAA
1 AAAAAATATATTTTAACAAAAAATTTAATAAAAATAAA
9526184 AAAAAA-ATATTTT
1 AAAAAATATATTTT
9526197 TATGTTCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
34 12 0.29
37 6 0.15
38 23 0.56
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (38 bp):
AAAAAATATATTTTAACAAAAAATTTAATAAAAATAAA
Found at i:9527910 original size:15 final size:15
Alignment explanation
Indices: 9527879--9527910 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9527869 GTTTTTAGAA
9527879 TTTTGGATTTTAAGG
1 TTTTGGATTTTAAGG
*
9527894 TTTTGGATTTTAGGG
1 TTTTGGATTTTAAGG
9527909 TT
1 TT
9527911 AGGGTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (15 bp):
TTTTGGATTTTAAGG
Found at i:9527963 original size:29 final size:28
Alignment explanation
Indices: 9527931--9528280 Score: 217
Period size: 29 Copynumber: 12.1 Consensus size: 28
9527921 GTTTCAGATT
* *
9527931 TTTGAGGTTTAGGTTTTTTGATTTTAAGG
1 TTTGAGGTTTAGG-GTTTTGATTTTAGGG
**
9527960 TTTGAAATTTAGGGTTTTGATTTTAGGG
1 TTTGAGGTTTAGGGTTTTGATTTTAGGG
* * *
9527988 TTTTGATGTTTTAGGGATTTGACTTTAGGG
1 -TTTGA-GGTTTAGGGTTTTGATTTTAGGG
* *
9528018 TTTGGAGGGTTTAAGGTTTTGTTTTTAGGG
1 TTT-GA-GGTTTAGGGTTTTGATTTTAGGG
* * **
9528048 TTTGAAGGTTTAGAGTTTCGATTTTAGAAC
1 TTTG-AGGTTTAGGGTTTTGATTTTAG-GG
* * *
9528078 TTAGAGGTTTGGGGTTTTGATTGTAGGG
1 TTTGAGGTTTAGGGTTTTGATTTTAGGG
* * *
9528106 TTTGGAAGGTGTATGG-TTTAATTTTAGGG
1 TTT-G-AGGTTTAGGGTTTTGATTTTAGGG
* * *
9528135 TTTAGAGGTTTAGTG-TTTAATTTTATGG
1 TTT-GAGGTTTAGGGTTTTGATTTTAGGG
*
9528163 TTTAGAGGGTTTAGGG-TTTAATTTTAGGG
1 TTT-GA-GGTTTAGGGTTTTGATTTTAGGG
* * * *
9528192 TTTGAAGGTTCA-GGATTTAATTTTAAGG
1 TTTG-AGGTTTAGGGTTTTGATTTTAGGG
* **
9528220 TTTAGAGGTTTTGGGGTTTAAAAATTTTAGGG
1 TTT-GAGG-TTTAGGGTTT--TGATTTTAGGG
* *
9528252 TTTG-GTTTTAGGG-TTTAATTTTAGGG
1 TTTGAGGTTTAGGGTTTTGATTTTAGGG
9528278 TTT
1 TTT
9528281 AAAGAAAACG
Statistics
Matches: 256, Mismatches: 50, Indels: 33
0.76 0.15 0.10
Matches are distributed among these distances:
26 13 0.05
27 2 0.01
28 66 0.26
29 104 0.41
30 58 0.23
31 1 0.00
32 12 0.05
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (28 bp):
TTTGAGGTTTAGGGTTTTGATTTTAGGG
Found at i:9527975 original size:14 final size:14
Alignment explanation
Indices: 9527946--9528050 Score: 86
Period size: 14 Copynumber: 7.2 Consensus size: 14
9527936 GGTTTAGGTT
*
9527946 TTTTGATTTTAAGG
1 TTTTGATTTTAGGG
*
9527960 -TTTGAAATTTAGGG
1 TTTTG-ATTTTAGGG
9527974 TTTTGATTTTAGGG
1 TTTTGATTTTAGGG
9527988 TTTTGATGTTTTAGGG
1 TTTTGA--TTTTAGGG
* *
9528004 ATTTGACTTTAGGG
1 TTTTGATTTTAGGG
* * *
9528018 TTTGGAGGGTTTAAGG
1 TTTTGA--TTTTAGGG
*
9528034 TTTTGTTTTTAGGG
1 TTTTGATTTTAGGG
9528048 TTT
1 TTT
9528051 GAAGGTTTAG
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
13 4 0.06
14 41 0.57
15 4 0.06
16 23 0.32
ACGTcount: A:0.17, C:0.01, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTTGATTTTAGGG
Found at i:9527978 original size:44 final size:42
Alignment explanation
Indices: 9527930--9528053 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 42
9527920 AGTTTCAGAT
*
9527930 TTTTGAGGTTTAGGTTTTTTGATTTTAAGGTTTGAAATTTAGGG
1 TTTTGAGGTTTAGG--TTTTGATTTTAGGGTTTGAAATTTAGGG
* *
9527974 TTTTGA-TTTTAGGGTTTTGATGTTTTAGGGATTTG-ACTTTAGGG
1 TTTTGAGGTTTA-GGTTTTGA--TTTTAGGG-TTTGAAATTTAGGG
* *
9528018 TTTGGAGGGTTTAAGGTTTTGTTTTTAGGGTTTGAA
1 TTTTGA-GGTTT-AGGTTTTGATTTTAGGGTTTGAA
9528054 GGTTTAGAGT
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
42 6 0.09
43 8 0.12
44 37 0.56
45 4 0.06
46 10 0.15
47 1 0.02
ACGTcount: A:0.18, C:0.01, G:0.30, T:0.52
Consensus pattern (42 bp):
TTTTGAGGTTTAGGTTTTGATTTTAGGGTTTGAAATTTAGGG
Found at i:9528041 original size:21 final size:22
Alignment explanation
Indices: 9528017--9528058 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
9528007 TGACTTTAGG
9528017 GTTTGGAGGGTTT-AAGGTTTT
1 GTTTGGAGGGTTTGAAGGTTTT
**
9528038 GTTTTTAGGGTTTGAAGGTTT
1 GTTTGGAGGGTTTGAAGGTTT
9528059 AGAGTTTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (22 bp):
GTTTGGAGGGTTTGAAGGTTTT
Found at i:9528140 original size:58 final size:56
Alignment explanation
Indices: 9527967--9528280 Score: 201
Period size: 57 Copynumber: 5.4 Consensus size: 56
9527957 AGGTTTGAAA
* * * * *
9527967 TTTAGGGTTTTGATTTTAGGGTTTTGATGTTTTAGGGATTTGACTTTAGGGTTTGGAGGG
1 TTTAGGGTTTTGATTTTAGGG-TTTGAAGGTTTA-GG-TTTAATTTTAGGGTTTAGA-GG
* * * ***
9528027 TTTAAGGTTTTGTTTTTAGGGTTTGAAGGTTTAGAGTTTCGATTTTAGAACTTAGAGG
1 TTTAGGGTTTTGATTTTAGGGTTTGAAGGTTTAG-GTTT-AATTTTAGGGTTTAGAGG
* * *
9528085 TTTGGGGTTTTGATTGTAGGGTTTGGAAGGTGTATGGTTTAATTTTAGGGTTTAGAGG
1 TTTAGGGTTTTGATTTTAGGGTTT-GAAGGTTTA-GGTTTAATTTTAGGGTTTAGAGG
* * * *
9528143 TTTAGTG-TTTAATTTTATGGTTTAGAGGGTTTAGGGTTTAATTTTAGGGTTT-GAAGG
1 TTTAGGGTTTTGATTTTAGGGTTT-GAAGGTTTA-GGTTTAATTTTAGGGTTTAG-AGG
* * * * * *
9528200 TTCA-GGATTTAATTTTAAGGTTT-AGAGGTTTTGGGGTTTAAAAATTTTAGGGTTT-G-GT
1 TTTAGGGTTTTGATTTTAGGGTTTGA-AGG-TTT-AGGTTT---AATTTTAGGGTTTAGAGG
*
9528258 TTTAGGG-TTTAATTTTAGGGTTT
1 TTTAGGGTTTTGATTTTAGGGTTT
9528281 AAAGAAAACG
Statistics
Matches: 206, Mismatches: 35, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
55 1 0.00
56 4 0.02
57 67 0.33
58 64 0.31
59 36 0.17
60 34 0.17
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (56 bp):
TTTAGGGTTTTGATTTTAGGGTTTGAAGGTTTAGGTTTAATTTTAGGGTTTAGAGG
Found at i:9528575 original size:12 final size:12
Alignment explanation
Indices: 9528558--9528583 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9528548 TATTATTCAA
9528558 TTATTATTATTT
1 TTATTATTATTT
9528570 TTATTATTATTT
1 TTATTATTATTT
9528582 TT
1 TT
9528584 TAAAGCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:9530039 original size:22 final size:22
Alignment explanation
Indices: 9530014--9530062 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
9530004 ATGCTCGGAG
*
9530014 GTCTTGGAAATCGTGCCCAAAA
1 GTCTTGGAAATCATGCCCAAAA
**
9530036 GTCTTGGAAATCATGCCCGGAA
1 GTCTTGGAAATCATGCCCAAAA
9530058 GTCTT
1 GTCTT
9530063 AAAGATTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (22 bp):
GTCTTGGAAATCATGCCCAAAA
Found at i:9530073 original size:22 final size:22
Alignment explanation
Indices: 9530034--9530107 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
9530024 TCGTGCCCAA
**
9530034 AAGTCTTGGAAATCATGCCCGG
1 AAGTCTTAAAAATCATGCCCGG
* * *
9530056 AAGTCTTAAAGATTATGCCTGG
1 AAGTCTTAAAAATCATGCCCGG
**
9530078 GGGTCTTAAAAATCATGCCC-G
1 AAGTCTTAAAAATCATGCCCGG
9530099 AAGGTCTTA
1 AA-GTCTTA
9530108 TAGAATCGAT
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
21 1 0.03
22 38 0.97
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (22 bp):
AAGTCTTAAAAATCATGCCCGG
Found at i:9530231 original size:22 final size:22
Alignment explanation
Indices: 9530174--9530246 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
9530164 ATCGCGAATC
* * *
9530174 GAAATTATGCCTGGAAGTCTTA
1 GAAATCATGCCCGAAAGTCTTA
* *
9530196 GATATTATGCCCGAAAGTCTTA
1 GAAATCATGCCCGAAAGTCTTA
* * *
9530218 AAAATCATGTCCGAAGGTCTTA
1 GAAATCATGCCCGAAAGTCTTA
9530240 GAAATCA
1 GAAATCA
9530247 CGTCTAAAGG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (22 bp):
GAAATCATGCCCGAAAGTCTTA
Found at i:9530256 original size:22 final size:22
Alignment explanation
Indices: 9530212--9530261 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
9530202 ATGCCCGAAA
* *
9530212 GTCTTAAAAATCATGTCCGAAG
1 GTCTTAAAAATCACGTCCAAAG
* *
9530234 GTCTTAGAAATCACGTCTAAAG
1 GTCTTAAAAATCACGTCCAAAG
9530256 GTCTTA
1 GTCTTA
9530262 CAGAATCGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (22 bp):
GTCTTAAAAATCACGTCCAAAG
Found at i:9530280 original size:154 final size:155
Alignment explanation
Indices: 9530034--9530378 Score: 358
Period size: 154 Copynumber: 2.2 Consensus size: 155
9530024 TCGTGCCCAA
* * * * ** * * *
9530034 AAGTCTTGGAAATCATGCCCGGAAGTCTTA-AAGATTATG-CCTGGGGGTCTTAAAAATCATGCC
1 AAGTCTTAGAAATCATGCCCGAAAGTCTTACAAAATCATGTCC-GAAGGTCTTAGAAATCACGTC
** * * * * *
9530097 CGAAGGTCTTATAGAATCGATTGAAATAACAACGCAAGTTGAAAA-AT-AAGAAATCAATCGGGA
65 TAAAGGTCTTACAGAATCGACTGAAATAACAACACAAG-TCAAAAGATAAAG-AATCAATCAGGA
* * *
9530160 TAAAATCGCGAATCGAAATTATGCCTGG
128 TAAAACCGCGAATAGAAATTATGCCCGG
* *
9530188 AAGTCTTAGATATTATGCCCGAAAGTCTTA-AAAATCATGTCCGAAGGTCTTAGAAATCACGTCT
1 AAGTCTTAGAAATCATGCCCGAAAGTCTTACAAAATCATGTCCGAAGGTCTTAGAAATCACGTCT
** * *
9530252 AAAGGTCTTACAGAATCGACTGGGATAACATCACAAGTCAAAAGATAAAGAATCGATCAGGATAA
66 AAAGGTCTTACAGAATCGACTGAAATAACAACACAAGTCAAAAGATAAAGAATCAATCAGGATAA
*
9530317 CACCGCGAATAGAAATTATGCCCGG
131 AACCGCGAATAGAAATTATGCCCGG
* * * *
9530342 ACGTCTTAGAAATCATGCCTGGAGGTCTTACAAAATC
1 AAGTCTTAGAAATCATGCCCGAAAGTCTTACAAAATC
9530379 GATTGGGATA
Statistics
Matches: 155, Mismatches: 32, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
153 5 0.03
154 139 0.90
155 11 0.07
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (155 bp):
AAGTCTTAGAAATCATGCCCGAAAGTCTTACAAAATCATGTCCGAAGGTCTTAGAAATCACGTCT
AAAGGTCTTACAGAATCGACTGAAATAACAACACAAGTCAAAAGATAAAGAATCAATCAGGATAA
AACCGCGAATAGAAATTATGCCCGG
Found at i:9530354 original size:22 final size:22
Alignment explanation
Indices: 9530326--9530371 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
9530316 ACACCGCGAA
*
9530326 TAGAAATTATGCCCGGACGTCT
1 TAGAAATCATGCCCGGACGTCT
* *
9530348 TAGAAATCATGCCTGGAGGTCT
1 TAGAAATCATGCCCGGACGTCT
9530370 TA
1 TA
9530372 CAAAATCGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (22 bp):
TAGAAATCATGCCCGGACGTCT
Found at i:9530427 original size:110 final size:108
Alignment explanation
Indices: 9530234--9530599 Score: 394
Period size: 110 Copynumber: 3.3 Consensus size: 108
9530224 ATGTCCGAAG
* * *
9530234 GTCTTAGAAATCACGTCTAAAGGTCTTACAGAATCGACTGGGATAACATC-ACAAGTCAAAAGAT
1 GTCTTAGAAATCATG-CTAGAGGTCTTACAAAATCGACTGGGATAACATCTA-AA-TCAAAAGAT
* * * * *
9530298 AAAGAATCGATCAGGATAACACCGCGAATAGAAATTATGCCCGGAC
63 AAAGAATCGATCGGGATAACATCGCGAATAGAAATTATGCCAGAAA
* * *
9530344 GTCTTAGAAATCATGCCTGGAGGTCTTACAAAATCGATTGGGATAACATCGTAAATCAAAAAATA
1 GTCTTAGAAATCATG-CTAGAGGTCTTACAAAATCGACTGGGATAACATC-TAAATCAAAAGATA
* * * *
9530409 AAAAATCAATCGGGATAACATCGTGAATTGAAATTATGCCAGAAA
64 AAGAATCGATCGGGATAACATCGCGAATAGAAATTATGCCAGAAA
* * * *
9530454 GTTTTAGAAATCATGCTATGAGGTTTTACAAAATCGACTAGGATAACA-CTACAAGTCGAAAGAT
1 GTCTTAGAAATCATGCTA-GAGGTCTTACAAAATCGACTGGGATAACATCTA-AA-TCAAAAGAT
* * * *
9530518 AAGGAATCGATCGAGATAACATCGCGAATCGAAATTATGCCAGAAG
63 AAAGAATCGATCGGGATAACATCGCGAATAGAAATTATGCCAGAAA
** *
9530564 GTCTTAGAAATCACACTCGAAGGTCTTACAGAAATC
1 GTCTTAGAAATCATGCTAG-AGGTCTTACA-AAATC
9530600 ATGCTTGGAG
Statistics
Matches: 214, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
108 2 0.01
109 6 0.03
110 198 0.93
111 7 0.03
112 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (108 bp):
GTCTTAGAAATCATGCTAGAGGTCTTACAAAATCGACTGGGATAACATCTAAATCAAAAGATAAA
GAATCGATCGGGATAACATCGCGAATAGAAATTATGCCAGAAA
Found at i:9530700 original size:134 final size:134
Alignment explanation
Indices: 9530459--9530711 Score: 384
Period size: 134 Copynumber: 1.9 Consensus size: 134
9530449 AGAAAGTTTT
* * *
9530459 AGAAATCATGCTATGAGGTTTTACAAAATCGACTAGGATAACACTACAAGTCGAAAGATAAGGAA
1 AGAAATCATGCTATGAGATCTTACAAAATCGACTAGGATAACACTACAAGTCGAAAGATAAGAAA
* * *
9530524 TCGATCGAGATAACATCGCGAATCGAAATTATGCCAGAAGGTCTTAGAAATCACACTCGAAGGTC
66 TCGATCGAGATAACACCGCAAATCAAAATTATGCCAGAAGGTCTTAGAAATCACACTCGAAGGTC
9530589 TTAC
131 TTAC
* * * *
9530593 AGAAATCATGCT-TGGAGATCTTACAGAATCGACTAGGATAACATTATACGTCGAAAGATAAGAA
1 AGAAATCATGCTAT-GAGATCTTACAAAATCGACTAGGATAACACTACAAGTCGAAAGATAAGAA
9530657 ATCGATCGAGATAACACCGCAAATCAAAATTATGCC-GAGAGGTCTTAGAAATCAC
65 ATCGATCGAGATAACACCGCAAATCAAAATTATGCCAGA-AGGTCTTAGAAATCAC
9530712 GTCCGGAGGT
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
133 3 0.03
134 104 0.97
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (134 bp):
AGAAATCATGCTATGAGATCTTACAAAATCGACTAGGATAACACTACAAGTCGAAAGATAAGAAA
TCGATCGAGATAACACCGCAAATCAAAATTATGCCAGAAGGTCTTAGAAATCACACTCGAAGGTC
TTAC
Found at i:9530708 original size:244 final size:244
Alignment explanation
Indices: 9530349--9530800 Score: 557
Period size: 244 Copynumber: 1.9 Consensus size: 244
9530339 CGGACGTCTT
* * * *
9530349 AGAAATCATGCCTGGAGGTCTTACAAAATCGATTGGGATAACATCGTAAATCAAAAAATAAAAAA
1 AGAAATCATGCCTGGAGATCTTACAAAATCGACTAGGATAACATCATAAATCAAAAAATAAAAAA
* * ** ** * * *
9530414 TCAATCGGGATAACATCGTGAATTGAAATTATGCCAGAAAGTTTTAGAAATCATG-CTATGAGGT
66 TCAATCGAGATAACACCGCAAATCAAAATTATGCCAGAAAGTCTTAGAAATCACGTC-AGGAGGT
* * * *
9530478 TTTACAAAATCGACTAGGATAACACTACAAGTCGAAAGATAAGGAATCGATCGAGATAACATCGC
130 CTAACAAAATCGACTAGGATAACAATACAAGTCGAAAGATAAGGAATCGATCGAGATAACACCGC
9530543 GAATCGAAATTATGCCAGAAGGTCTTAGAAATCACACTCGAAGGTCTTAC
195 GAATCGAAATTATGCCAGAAGGTCTTAGAAATCACACTCGAAGGTCTTAC
* * * ** * * *
9530593 AGAAATCATGCTTGGAGATCTTACAGAATCGACTAGGATAACATTATACGTCGAAAGATAAGAAA
1 AGAAATCATGCCTGGAGATCTTACAAAATCGACTAGGATAACATCATAAATCAAAAAATAAAAAA
* * *
9530658 TCGATCGAGATAACACCGCAAATCAAAATTATGCC-GAGAGGTCTTAGAAATCACGTCCGGAGGT
66 TCAATCGAGATAACACCGCAAATCAAAATTATGCCAGA-AAGTCTTAGAAATCACGTCAGGAGGT
* * * * * * *
9530722 CTAACAGAATCGATTGGGATAACAATACAAGTCGAAAGATACGTAATCGATCGGGATAACACCGT
130 CTAACAAAATCGACTAGGATAACAATACAAGTCGAAAGATAAGGAATCGATCGAGATAACACCGC
9530787 GAATCGAAATTATG
195 GAATCGAAATTATG
9530801 TTCGGAGGTC
Statistics
Matches: 171, Mismatches: 35, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
243 2 0.01
244 168 0.98
245 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (244 bp):
AGAAATCATGCCTGGAGATCTTACAAAATCGACTAGGATAACATCATAAATCAAAAAATAAAAAA
TCAATCGAGATAACACCGCAAATCAAAATTATGCCAGAAAGTCTTAGAAATCACGTCAGGAGGTC
TAACAAAATCGACTAGGATAACAATACAAGTCGAAAGATAAGGAATCGATCGAGATAACACCGCG
AATCGAAATTATGCCAGAAGGTCTTAGAAATCACACTCGAAGGTCTTAC
Found at i:9530730 original size:110 final size:110
Alignment explanation
Indices: 9530606--9530813 Score: 274
Period size: 110 Copynumber: 1.9 Consensus size: 110
9530596 AATCATGCTT
* * * *
9530606 GGAGATCTTACAGAATCGACTAGGATAACATTATACGTCGAAAGATAAGAAATCGATCGAGATAA
1 GGAGATCTAACAGAATCGACTAGGATAACAATACAAGTCGAAAGATAAGAAATCGATCGAGATAA
9530671 CACCGCAAATCAAAATTATG-CCGAGAGGTCTTAGAAATCACGTCC
66 CACCGCAAATCAAAATTATGTCCG-GAGGTCTTAGAAATCACGTCC
* * * * * *
9530716 GGAGGTCTAACAGAATCGATTGGGATAACAATACAAGTCGAAAGATACGTAATCGATCGGGATAA
1 GGAGATCTAACAGAATCGACTAGGATAACAATACAAGTCGAAAGATAAGAAATCGATCGAGATAA
** * *
9530781 CACCGTGAATCGAAATTATGTTCGGAGGTCTTA
66 CACCGCAAATCAAAATTATGTCCGGAGGTCTTA
9530814 CAAAATTGAT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
110 81 0.98
111 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (110 bp):
GGAGATCTAACAGAATCGACTAGGATAACAATACAAGTCGAAAGATAAGAAATCGATCGAGATAA
CACCGCAAATCAAAATTATGTCCGGAGGTCTTAGAAATCACGTCC
Found at i:9530858 original size:88 final size:88
Alignment explanation
Indices: 9530715--9530888 Score: 222
Period size: 88 Copynumber: 2.0 Consensus size: 88
9530705 AAATCACGTC
* * * * * * *
9530715 CGGAGGTCTAACAGAATCGATTGGGATAACAATACAAGTCGAAAGATACGTAATCGATCGGGATA
1 CGGAGGTCTAACAAAATCGATTGGGATAACAACACAAGTCAAAAAATAAGAAATCGATCGAGATA
*
9530780 ACACCGTGAATCGAAATTATGTT
66 ACACCGTAAATCGAAATTATGTT
* * * *
9530803 CGGAGGTCTTACAAAATTGATTGGGATAACACCGCAAGTCAAAAAATAAGAAATCGATCGAGATA
1 CGGAGGTCTAACAAAATCGATTGGGATAACAACACAAGTCAAAAAATAAGAAATCGATCGAGATA
* *
9530868 ATATCGTAAATCGAAATTATG
66 ACACCGTAAATCGAAATTATG
9530889 CCCAGAGGTC
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
88 72 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (88 bp):
CGGAGGTCTAACAAAATCGATTGGGATAACAACACAAGTCAAAAAATAAGAAATCGATCGAGATA
ACACCGTAAATCGAAATTATGTT
Found at i:9530908 original size:22 final size:22
Alignment explanation
Indices: 9530880--9530924 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
9530870 ATCGTAAATC
*
9530880 GAAATTATGCCCAGAGGTCTTA
1 GAAATTATGCCCAAAGGTCTTA
*
9530902 GAAATTATGCTCAAAGGTCTTA
1 GAAATTATGCCCAAAGGTCTTA
9530924 G
1 G
9530925 GAATCTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (22 bp):
GAAATTATGCCCAAAGGTCTTA
Found at i:9531349 original size:41 final size:41
Alignment explanation
Indices: 9531288--9531368 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
9531278 AAATGTTTTA
* * * *
9531288 AAATCTTGATTGAAATTGGTTTCTCTTAACCAGAGGCTTTG
1 AAATCTTGATTGAAAATGGTTCCTATTAAACAGAGGCTTTG
9531329 AAATCTTGATTGAAAATGGTTCCTATTAAACAGAGGCTTT
1 AAATCTTGATTGAAAATGGTTCCTATTAAACAGAGGCTTT
9531369 AAAACTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (41 bp):
AAATCTTGATTGAAAATGGTTCCTATTAAACAGAGGCTTTG
Found at i:9532831 original size:22 final size:21
Alignment explanation
Indices: 9532798--9532839 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
9532788 AAAGATGTCC
9532798 CTTTTTATTTTTATTTTTTTA
1 CTTTTTATTTTTATTTTTTTA
* *
9532819 CTTTTTTTGTTTTGTTTTTTT
1 CTTTTTAT-TTTTATTTTTTT
9532840 TATGCCCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.83
Consensus pattern (21 bp):
CTTTTTATTTTTATTTTTTTA
Found at i:9537554 original size:13 final size:13
Alignment explanation
Indices: 9537536--9537560 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9537526 AAGATGAAAC
9537536 AAAATTTGAAAAA
1 AAAATTTGAAAAA
9537549 AAAATTTGAAAA
1 AAAATTTGAAAA
9537561 GGAAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAATTTGAAAAA
Found at i:9539498 original size:15 final size:15
Alignment explanation
Indices: 9539480--9539563 Score: 59
Period size: 14 Copynumber: 5.9 Consensus size: 15
9539470 TAGAAATTTG
9539480 GATTTTAAGGTTTTA
1 GATTTTAAGGTTTTA
* *
9539495 GATTTTAGGGTTTGA
1 GATTTTAAGGTTTTA
* **
9539510 -AATTTGGGGTTTT-
1 GATTTTAAGGTTTTA
*
9539523 GATTTTAAGGTTTAA
1 GATTTTAAGGTTTTA
* *
9539538 GGTTTGAA-GTTTT-
1 GATTTTAAGGTTTTA
*
9539551 GGTTTTAAGGTTT
1 GATTTTAAGGTTT
9539564 AGAGGATTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 7
0.73 0.18 0.10
Matches are distributed among these distances:
13 7 0.13
14 27 0.51
15 19 0.36
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.51
Consensus pattern (15 bp):
GATTTTAAGGTTTTA
Found at i:9539520 original size:29 final size:28
Alignment explanation
Indices: 9539488--9539651 Score: 114
Period size: 29 Copynumber: 5.7 Consensus size: 28
9539478 TGGATTTTAA
9539488 GGTTTTAGATTTTAGGGTTTGAAATTTGG
1 GGTTTT-GATTTTAGGGTTTGAAATTTGG
* * *
9539517 GGTTTTGATTTTAAGGTTT-AAGGTTTGA
1 GGTTTTGATTTTAGGGTTTGAA-ATTTGG
* * * * *
9539545 AGTTTTGGTTTTAAGGTTTAGAGGATTTAG
1 GGTTTTGATTTTAGGGTTT-GA-AATTTGG
* *
9539575 GGTTTTGTTTTTAGGGTTTGAAGGTTTGG
1 GGTTTTGATTTTAGGGTTTGAA-ATTTGG
* * ** * *
9539604 AGTTTCGATTTTAGAACTTAGAGATTTGG
1 GGTTTTGATTTTAG-GGTTTGAAATTTGG
*
9539633 GGTTTTGATTGTAGGGTTT
1 GGTTTTGATTTTAGGGTTT
9539652 ATAAGGTGTA
Statistics
Matches: 100, Mismatches: 29, Indels: 13
0.70 0.20 0.09
Matches are distributed among these distances:
27 2 0.02
28 35 0.35
29 39 0.39
30 24 0.24
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (28 bp):
GGTTTTGATTTTAGGGTTTGAAATTTGG
Found at i:9539580 original size:58 final size:57
Alignment explanation
Indices: 9539511--9539652 Score: 169
Period size: 58 Copynumber: 2.5 Consensus size: 57
9539501 AGGGTTTGAA
* * * **
9539511 ATTTGGGGTTTTGATTTTAAGGTTTAAGGTTTGAAGTTTTGGTTTTA-AGGTTTAGAGG
1 ATTTGGGGTTTTGATTTTAGGGTTTAAGGTTTGAAGTTTCGATTTTAGA-ACTTAGA-G
* * *
9539569 ATTTAGGGTTTTGTTTTTAGGGTTTGAAGGTTTGGAGTTTCGATTTTAGAACTTAGAG
1 ATTTGGGGTTTTGATTTTAGGGTTT-AAGGTTTGAAGTTTCGATTTTAGAACTTAGAG
*
9539627 ATTTGGGGTTTTGATTGTAGGGTTTA
1 ATTTGGGGTTTTGATTTTAGGGTTTA
9539653 TAAGGTGTAT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
57 1 0.01
58 45 0.63
59 24 0.34
60 1 0.01
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (57 bp):
ATTTGGGGTTTTGATTTTAGGGTTTAAGGTTTGAAGTTTCGATTTTAGAACTTAGAG
Found at i:9539707 original size:13 final size:13
Alignment explanation
Indices: 9539664--9539738 Score: 60
Period size: 13 Copynumber: 5.4 Consensus size: 13
9539654 AAGGTGTATA
9539664 GTTTAATTTTAGG
1 GTTTAATTTTAGG
**
9539677 GTTTGGAGGTTTAGG
1 GTTT--AATTTTAGG
*
9539692 GTTTAATTTTATG
1 GTTTAATTTTAGG
*
9539705 GTTTAGAGGGTTTAGG
1 GTTTA-A--TTTTAGG
*
9539721 GTTTAATTTTAAG
1 GTTTAATTTTAGG
9539734 GTTTA
1 GTTTA
9539739 GGGTTTGAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
13 25 0.52
14 1 0.02
15 12 0.25
16 10 0.21
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.49
Consensus pattern (13 bp):
GTTTAATTTTAGG
Found at i:9539726 original size:29 final size:28
Alignment explanation
Indices: 9539524--9539831 Score: 144
Period size: 29 Copynumber: 10.5 Consensus size: 28
9539514 TGGGGTTTTG
* * *
9539524 ATTTTAAGGTTTA-AGGTTTGAAGTTTTG
1 ATTTTAAGGTTTAGAGGTTT-AGGGTTTA
* *
9539552 GTTTTAAGGTTTAGAGGATTTAGGGTTTTG
1 ATTTTAAGGTTTAGAGG-TTTAGGG-TTTA
* * *
9539582 TTTTTAGGGTTT-GAAGGTTT-GGAGTTTCG
1 ATTTTAAGGTTTAG-AGGTTTAGG-GTTT-A
** * * *
9539611 ATTTT-AGAACTTAGAGATTTGGGGTTTTG
1 ATTTTAAG-GTTTAGAGGTTTAGGG-TTTA
* * * * **
9539640 ATTGTAGGGTTTATAAGGTGTATAGTTTA
1 ATTTTAAGGTTTA-GAGGTTTAGGGTTTA
* *
9539669 ATTTTAGGGTTTGGAGGTTTAGGGTTTA
1 ATTTTAAGGTTTAGAGGTTTAGGGTTTA
*
9539697 ATTTTATGGTTTAGAGGGTTTAGGGTTTA
1 ATTTTAAGGTTTAGA-GGTTTAGGGTTTA
9539726 ATTTTAAGGTTTAG-GGTTTGAAGGTTCGGAATTTA
1 ATTTTAAGGTTTAGAGGTTT--A-G---GG--TTTA
*
9539761 ATTTTAAGGTTTAGAGGTTTTGGGGTTTAAAA
1 ATTTTAAGGTTTAGAGG-TTTAGGGTTT---A
*
9539793 ATTTTAAGGTTT-GA-TTTTAGGGTTTA
1 ATTTTAAGGTTTAGAGGTTTAGGGTTTA
*
9539819 ATTTTAGGGTTTA
1 ATTTTAAGGTTTA
9539832 AAGAAAATGT
Statistics
Matches: 219, Mismatches: 34, Indels: 55
0.71 0.11 0.18
Matches are distributed among these distances:
26 12 0.05
27 5 0.02
28 42 0.19
29 84 0.38
30 33 0.15
31 4 0.02
32 13 0.06
33 2 0.01
34 1 0.00
35 18 0.08
36 2 0.01
37 3 0.01
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (28 bp):
ATTTTAAGGTTTAGAGGTTTAGGGTTTA
Found at i:9539751 original size:64 final size:65
Alignment explanation
Indices: 9539671--9539804 Score: 173
Period size: 64 Copynumber: 2.0 Consensus size: 65
9539661 ATAGTTTAAT
* * *
9539671 TTTAGGGTTTGGAGGTTTAGG-GTTTAATTTTATGGTTTAGAGGGTTTAGGGTTT-AATTTTAAG
1 TTTAGGGTTTGAAGG-TTAGGAATTTAATTTTAAGGTTTAGAGGGTTTAGGGTTTAAATTTTAAG
9539734 G
65 G
* * *
9539735 TTTAGGGTTTGAAGGTTCGGAATTTAATTTTAAGGTTTAGAGGTTTTGGGGTTTAAAAATTTTAA
1 TTTAGGGTTTGAAGGTTAGGAATTTAATTTTAAGGTTTAGAGGGTTTAGGGTTT--AAATTTTAA
9539800 GG
64 GG
9539802 TTT
1 TTT
9539805 GATTTTAGGG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
63 4 0.07
64 43 0.72
67 13 0.22
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (65 bp):
TTTAGGGTTTGAAGGTTAGGAATTTAATTTTAAGGTTTAGAGGGTTTAGGGTTTAAATTTTAAGG
Found at i:9539811 original size:13 final size:13
Alignment explanation
Indices: 9539792--9539832 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
9539782 GGGGTTTAAA
*
9539792 AATTTTAAGGTTT
1 AATTTTAGGGTTT
*
9539805 GATTTTAGGGTTT
1 AATTTTAGGGTTT
9539818 AATTTTAGGGTTT
1 AATTTTAGGGTTT
9539831 AA
1 AA
9539833 AGAAAATGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
AATTTTAGGGTTT
Found at i:9540103 original size:3 final size:3
Alignment explanation
Indices: 9540097--9540144 Score: 51
Period size: 3 Copynumber: 14.3 Consensus size: 3
9540087 AAATAAATAA
9540097 TAT TAT TCAAT TAT TAT TATT TATT TATT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-A-T TAT TAT TA-T TA-T TA-T TAT TAT TAT TAT TAT TAT
9540144 T
1 T
9540145 TTAAGCATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
3 27 0.64
4 13 0.31
5 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9540946 original size:12 final size:14
Alignment explanation
Indices: 9540928--9540957 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9540918 TTTGTCTTTG
9540928 TTTTT-TGTTTCTA
1 TTTTTGTGTTTCTA
9540941 TTTTTGTGTTTCTA
1 TTTTTGTGTTTCTA
9540955 TTT
1 TTT
9540958 GGGTATTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.07, C:0.07, G:0.10, T:0.77
Consensus pattern (14 bp):
TTTTTGTGTTTCTA
Found at i:9541700 original size:16 final size:18
Alignment explanation
Indices: 9541681--9541717 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
9541671 TTTCATTTTT
9541681 AATTTTTA-AAATTTA-A
1 AATTTTTATAAATTTATA
9541697 AA-TTTTATAAATTTATA
1 AATTTTTATAAATTTATA
9541714 AATT
1 AATT
9541718 AATTAGGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 5 0.28
16 9 0.50
17 3 0.17
18 1 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTTTATAAATTTATA
Found at i:9543694 original size:11 final size:11
Alignment explanation
Indices: 9543678--9543715 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
9543668 GATCACAATG
*
9543678 TCTTTTTCTTT
1 TCTTTTTCTTC
9543689 TCTTTTTCTTC
1 TCTTTTTCTTC
9543700 TCTTTTTCTTC
1 TCTTTTTCTTC
9543711 TCTTT
1 TCTTT
9543716 CCACCCTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TCTTTTTCTTC
Found at i:9553104 original size:41 final size:41
Alignment explanation
Indices: 9553057--9553159 Score: 108
Period size: 38 Copynumber: 2.6 Consensus size: 41
9553047 TTGTTAAAAA
* * *
9553057 TATTGATATTATGAAAATAATAATATTATAATATCATTTAT
1 TATTGATATTATCAAAATAATAATATTATAATATAATATAT
* * *
9553098 TATTG--ATTATCAAAATAAT-ATAATATTATTTAATATAT
1 TATTGATATTATCAAAATAATAATATTATAATATAATATAT
*
9553136 TA-T-ATATTATTAAAATAATAATAT
1 TATTGATATTATCAAAATAATAATAT
9553160 AATGCTATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
37 1 0.02
38 29 0.57
39 16 0.31
41 5 0.10
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.47
Consensus pattern (41 bp):
TATTGATATTATCAAAATAATAATATTATAATATAATATAT
Found at i:9553160 original size:19 final size:18
Alignment explanation
Indices: 9553103--9553159 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
9553093 TTTATTATTG
*
9553103 ATTATCAAAATAATATAAT
1 ATTATTAAAATAATAT-AT
* *
9553122 ATTATTTAATATATTATAT
1 ATTA-TTAAAATAATATAT
9553141 ATTATTAAAATAATA-AT
1 ATTATTAAAATAATATAT
9553158 AT
1 AT
9553160 AATGCTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 4 0.12
18 9 0.28
19 10 0.31
20 9 0.28
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATTAAAATAATATAT
Found at i:9556173 original size:25 final size:25
Alignment explanation
Indices: 9556142--9556207 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
9556132 ATTAATATAC
**
9556142 TATTAAAATATTAAAAATTATTTAT
1 TATTAAAATATTAAAAACAATTTAT
**
9556167 TATTAAAATATATTGAAACAATTTAT
1 TATTAAAATAT-TAAAAACAATTTAT
9556193 TATTAAAATTATTAA
1 TATTAAAA-TATTAA
9556208 TATTAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 11 0.33
26 19 0.58
27 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
TATTAAAATATTAAAAACAATTTAT
Found at i:9556223 original size:17 final size:18
Alignment explanation
Indices: 9556190--9556253 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 18
9556180 TGAAACAATT
* *
9556190 TATTATTAAAATTATTAA
1 TATTAATAAAATAATTAA
9556208 TATTAA-AAAATAATTATA
1 TATTAATAAAATAATTA-A
* *
9556226 TTTTAATAATAATATTTAA
1 TATTAATAA-AATAATTAA
9556245 TACTTAATA
1 TA-TTAATA
9556254 TTATATTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 9 0.24
18 11 0.30
19 4 0.11
20 13 0.35
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAATAAAATAATTAA
Found at i:9556322 original size:29 final size:29
Alignment explanation
Indices: 9556289--9556344 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
9556279 AAATAAAACA
9556289 ATTTATTATTTATATTAATAGTTTAAATC
1 ATTTATTATTTATATTAATAGTTTAAATC
*
9556318 ATTTATTATTTATATTAATATTTTAAA
1 ATTTATTATTTATATTAATAGTTTAAA
9556345 ATATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (29 bp):
ATTTATTATTTATATTAATAGTTTAAATC
Found at i:9556360 original size:31 final size:29
Alignment explanation
Indices: 9556293--9556371 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
9556283 AAAACAATTT
* *
9556293 ATTATTTATATTAATAGTTTAAATCATTT
1 ATTATTTATATTAATATTTTAAATCATTA
9556322 ATTATTTATATTAATATTTTAAAAT-ATTAAA
1 ATTATTTATATTAATATTTT-AAATCATT--A
*
9556353 ATTATTTATAATAATATTT
1 ATTATTTATATTAATATTT
9556372 GTAGTTGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 22 0.50
30 4 0.09
31 18 0.41
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (29 bp):
ATTATTTATATTAATATTTTAAATCATTA
Found at i:9564758 original size:3 final size:3
Alignment explanation
Indices: 9564744--9564827 Score: 73
Period size: 3 Copynumber: 28.3 Consensus size: 3
9564734 CATTTTCAGT
* * * *
9564744 ATA ATA ACA ATA ATA ATT TTA ATA ATA ATA ATA ATA ATA ATA ACA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * *
9564793 TTA A-A AAA ATA TTA TTA ATA ATA AT- ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9564828 AAAAAAAGAG
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
2 4 0.06
3 59 0.91
4 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:9566287 original size:16 final size:16
Alignment explanation
Indices: 9566268--9566352 Score: 79
Period size: 16 Copynumber: 5.5 Consensus size: 16
9566258 CTAGGATTCT
9566268 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
* * * *
9566284 AAAATCTCTTAACTCC
1 AAAACCCCTAAAATCC
*
9566300 -AAACCTCCTAAAATCT
1 AAAACC-CCTAAAATCC
9566316 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
9566332 -AAA-CCCTTAAAT-C
1 AAAACCCCTAAAATCC
9566345 AAAACCCC
1 AAAACCCC
9566353 AAACCTCAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
13 1 0.02
14 11 0.20
15 10 0.19
16 27 0.50
17 5 0.09
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Done.